Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008361.1 Kokia drynarioides strain JFW-HI SEQ_123028, 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: 4663
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36


Found at i:1458 original size:11 final size:10

Alignment explanation


    Indices: 1440--1475  Score: 54
    Period size: 10  Copynumber: 3.5  Consensus size: 10

       1430 AGAAATATTT

                      
       1440 AAAAAGAAAA
          1 AAAAAGAAAA

                       
       1450 AATAAAGAAAA
          1 AA-AAAGAAAA

              *       
       1461 AAGAAGAAAA
          1 AAAAAGAAAA

                 
       1471 AAAAA
          1 AAAAA

       1476 ATATATGTTG


Statistics
Matches: 23,  Mismatches: 2, Indels: 2
        0.85            0.07        0.07

Matches are distributed among these distances:
  10   13  0.57
  11   10  0.43

ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03


Consensus pattern (10 bp):   
AAAAAGAAAA

Found at i:4603 original size:41 final size:41

Alignment explanation


    Indices: 4558--4663  Score: 149
    Period size: 41  Copynumber: 2.6  Consensus size: 41

       4548 AGTATGATAT

                                          *          
       4558 TATATTAAAGGAAGACTCATGTCTCGGAATTAGCATAAGAG
          1 TATATTAAAGGAAGACTCATGTCTCGGAATGAGCATAAGAG

                                       *        **  *
       4599 TATATTAAAGGAAGACTCATGTCTCGGGATGAGCATGTGAT
          1 TATATTAAAGGAAGACTCATGTCTCGGAATGAGCATAAGAG

                           *   *    
       4640 TATATTAAAGGAAGAATCACGTCT
          1 TATATTAAAGGAAGACTCATGTCT


Statistics
Matches: 58,  Mismatches: 7, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  41   58  1.00

ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28


Consensus pattern (41 bp):   
TATATTAAAGGAAGACTCATGTCTCGGAATGAGCATAAGAG
Done.