Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009277.1 Kokia drynarioides strain JFW-HI SEQ_123982, 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: 7653
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29


Found at i:1220 original size:16 final size:16

Alignment explanation


    Indices: 1199--1233  Score: 52
    Period size: 16  Copynumber: 2.2  Consensus size: 16

       1189 TAATCACAAA

                     *    * 
       1199 AAACCAAAAGAAAAGG
          1 AAACCAAAAAAAAAAG

                            
       1215 AAACCAAAAAAAAAAG
          1 AAACCAAAAAAAAAAG

               
       1231 AAA
          1 AAA

       1234 TAAGAAGAAC


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  16   17  1.00

ACGTcount: A:0.77, C:0.11, G:0.11, T:0.00


Consensus pattern (16 bp):   
AAACCAAAAAAAAAAG

Found at i:4981 original size:26 final size:26

Alignment explanation


    Indices: 4951--5002  Score: 68
    Period size: 26  Copynumber: 2.0  Consensus size: 26

       4941 TATTACATCA

                 *    *          *    
       4951 GATAATAGTTCAATCAGAGATCAGCT
          1 GATAACAGTTAAATCAGAGATAAGCT

                            *         
       4977 GATAACAGTTAAATCATAGATAAGCT
          1 GATAACAGTTAAATCAGAGATAAGCT

       5003 AACATAGTAC


Statistics
Matches: 22,  Mismatches: 4, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  26   22  1.00

ACGTcount: A:0.42, C:0.13, G:0.17, T:0.27


Consensus pattern (26 bp):   
GATAACAGTTAAATCAGAGATAAGCT

Found at i:5709 original size:39 final size:39

Alignment explanation


    Indices: 5645--5752  Score: 153
    Period size: 39  Copynumber: 2.8  Consensus size: 39

       5635 ACTAATTCCA

                      *    *    *                  
       5645 TAACAATATTACAGTATTTATAGTGTCACTGCCAGTCTG
          1 TAACAATATTGCAGTGTTTACAGTGTCACTGCCAGTCTG

                 *                      *   *      
       5684 TAACATTATTGCAGTGTTTACAGTGTCATTGCTAGTCTG
          1 TAACAATATTGCAGTGTTTACAGTGTCACTGCCAGTCTG

                                  *       
       5723 TAACAATATTGCAGTGTTTACAATGTCACT
          1 TAACAATATTGCAGTGTTTACAGTGTCACT

       5753 ACCAATTCAG


Statistics
Matches: 60,  Mismatches: 9, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  39   60  1.00

ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38


Consensus pattern (39 bp):   
TAACAATATTGCAGTGTTTACAGTGTCACTGCCAGTCTG
Done.