Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003006.1 Kokia drynarioides strain JFW-HI SEQ_115507, 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: 7822
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37


Found at i:3774 original size:30 final size:31

Alignment explanation


    Indices: 3707--3775  Score: 131
    Period size: 31  Copynumber: 2.3  Consensus size: 31

       3697 ATTTTTACTT

                                           
       3707 ATAGTTTATAATTTATAATACTTCTAAAAAA
          1 ATAGTTTATAATTTATAATACTTCTAAAAAA

                                           
       3738 ATAGTTTATAATTTATAATACTTCTAAAAAA
          1 ATAGTTTATAATTTATAATACTTCTAAAAAA

                    
       3769 A-AGTTTA
          1 ATAGTTTA

       3776 GTATGCTTTT


Statistics
Matches: 38,  Mismatches: 0, Indels: 1
        0.97            0.00        0.03

Matches are distributed among these distances:
  30    6  0.16
  31   32  0.84

ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42


Consensus pattern (31 bp):   
ATAGTTTATAATTTATAATACTTCTAAAAAA

Found at i:5673 original size:22 final size:23

Alignment explanation


    Indices: 5634--5676  Score: 61
    Period size: 22  Copynumber: 1.9  Consensus size: 23

       5624 GTATATGTAA

                                   
       5634 TTTTCATATATTTAAAATTTAGT
          1 TTTTCATATATTTAAAATTTAGT

                     *   *       
       5657 TTTTC-TATTTTTTAAATTTA
          1 TTTTCATATATTTAAAATTTA

       5677 AAGATTCATG


Statistics
Matches: 18,  Mismatches: 2, Indels: 1
        0.86            0.10        0.05

Matches are distributed among these distances:
  22   13  0.72
  23    5  0.28

ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63


Consensus pattern (23 bp):   
TTTTCATATATTTAAAATTTAGT

Found at i:7015 original size:22 final size:22

Alignment explanation


    Indices: 6975--7017  Score: 61
    Period size: 22  Copynumber: 2.0  Consensus size: 22

       6965 AATTGGGACA

                          *       
       6975 AAAAAACTTACGTATCAAATTC
          1 AAAAAACTTACGTACCAAATTC

                                  
       6997 AAAAAACTTA-GATACCAAATT
          1 AAAAAACTTACG-TACCAAATT

       7018 GAATATTGGA


Statistics
Matches: 19,  Mismatches: 1, Indels: 2
        0.86            0.05        0.09

Matches are distributed among these distances:
  21    1  0.05
  22   18  0.95

ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26


Consensus pattern (22 bp):   
AAAAAACTTACGTACCAAATTC
Done.