Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000630.1 Kokia drynarioides strain JFW-HI SEQ_111590, 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: 2421
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.30


Found at i:448 original size:59 final size:59

Alignment explanation


    Indices: 337--467  Score: 144
    Period size: 59  Copynumber: 2.2  Consensus size: 59

        327 TTTGGGGGTA

                                          *                 *          
        337 AAAATAGTAA-TTTTGAGAGTTTCGAGGTCGAAAACGGAGTCTTCGGACATTCGGGAGT
          1 AAAATAGTAATTTTTGAGAGTTTCGAGGTCCAAAACGGAGTCTTCGGAAATTCGGGAGT

                                      *         *      *  *           *  
        395 AAAATAGTAATTTTTG-GATGTTTCGGGGTCCAAAATGG-GATTTTTGGAAATTCGGGGGT
          1 AAAATAGTAATTTTTGAGA-GTTTCGAGGTCCAAAACGGAG-TCTTCGGAAATTCGGGAGT

                           
        454 AAAAT-GATAATTTT
          1 AAAATAG-TAATTTT

        468 CAAAAGTTTT


Statistics
Matches: 62,  Mismatches: 7, Indels: 7
        0.82            0.09        0.09

Matches are distributed among these distances:
  58   14  0.23
  59   48  0.77

ACGTcount: A:0.31, C:0.08, G:0.27, T:0.33


Consensus pattern (59 bp):   
AAAATAGTAATTTTTGAGAGTTTCGAGGTCCAAAACGGAGTCTTCGGAAATTCGGGAGT

Found at i:875 original size:19 final size:21

Alignment explanation


    Indices: 807--874  Score: 66
    Period size: 21  Copynumber: 3.1  Consensus size: 21

        797 TACTATAATG

                      *            
        807 TAAATAT-TAAAAAATATTAAGA
          1 TAAATATATATAAAATATT-A-A

             * *                 
        829 TGACTATATATAAAATATTAA
          1 TAAATATATATAAAATATTAA

                                   
        850 TAAATATATATAAAATTATTCAA
          1 TAAATATATATAAAA-TATT-AA

              
        873 TA
          1 TA

        875 TTAAATTAAA


Statistics
Matches: 38,  Mismatches: 5, Indels: 5
        0.79            0.10        0.10

Matches are distributed among these distances:
  21   14  0.37
  22   10  0.26
  23   14  0.37

ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37


Consensus pattern (21 bp):   
TAAATATATATAAAATATTAA
Done.