Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008145.1 Kokia drynarioides strain JFW-HI SEQ_122803, 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: 11042
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31


Found at i:903 original size:17 final size:18

Alignment explanation


    Indices: 865--904  Score: 57
    Period size: 17  Copynumber: 2.3  Consensus size: 18

        855 GCAAATGTGT

                   *          
        865 TGACAAATAAAATGTAGA
          1 TGACAAACAAAATGTAGA

                              
        883 -GACAAACAAAATGTA-A
          1 TGACAAACAAAATGTAGA

                  
        899 TGACAA
          1 TGACAA

        905 CTAAATGAAA


Statistics
Matches: 20,  Mismatches: 1, Indels: 3
        0.83            0.04        0.12

Matches are distributed among these distances:
  16    1  0.05
  17   19  0.95

ACGTcount: A:0.57, C:0.10, G:0.15, T:0.17


Consensus pattern (18 bp):   
TGACAAACAAAATGTAGA

Found at i:4039 original size:12 final size:12

Alignment explanation


    Indices: 4002--4039  Score: 60
    Period size: 12  Copynumber: 3.2  Consensus size: 12

       3992 CTTTTCTTCA

                        
       4002 TTCTT-CTTCTC
          1 TTCTTCCTTCTC

              *         
       4013 TTATTCCTTCTC
          1 TTCTTCCTTCTC

                        
       4025 TTCTTCCTTCTC
          1 TTCTTCCTTCTC

               
       4037 TTC
          1 TTC

       4040 CTCATTTTCC


Statistics
Matches: 24,  Mismatches: 2, Indels: 1
        0.89            0.07        0.04

Matches are distributed among these distances:
  11    4  0.17
  12   20  0.83

ACGTcount: A:0.03, C:0.37, G:0.00, T:0.61


Consensus pattern (12 bp):   
TTCTTCCTTCTC

Found at i:4067 original size:18 final size:18

Alignment explanation


    Indices: 4028--4074  Score: 51
    Period size: 18  Copynumber: 2.6  Consensus size: 18

       4018 CCTTCTCTTC

                             **
       4028 TTCCTTC-TCTTCCTCATT
          1 TTCCTTCTTC-TCCTCAAG

                              
       4046 TTCCTTCTTCTCCTCAAG
          1 TTCCTTCTTCTCCTCAAG

                 *     
       4064 TTCCTCCTTCT
          1 TTCCTTCTTCT

       4075 TAGCTATGTT


Statistics
Matches: 25,  Mismatches: 3, Indels: 2
        0.83            0.10        0.07

Matches are distributed among these distances:
  18   23  0.92
  19    2  0.08

ACGTcount: A:0.06, C:0.40, G:0.02, T:0.51


Consensus pattern (18 bp):   
TTCCTTCTTCTCCTCAAG
Done.