Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01014259.1 Kokia drynarioides strain JFW-HI SEQ_129292, 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: 16095
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35


Found at i:990 original size:41 final size:41

Alignment explanation


    Indices: 945--1073  Score: 143
    Period size: 41  Copynumber: 3.1  Consensus size: 41

        935 GAAATTGTAG

                   **     *                          
        945 AAAAACGTTTCCACGTGGAAGCACTTTTCCTTGAATGAGAC
          1 AAAAACGCCTCCACATGGAAGCACTTTTCCTTGAATGAGAC

                 *       *   *              *        
        986 AAAAATGCCTCCATATGAAAGCACTTTTCCTTAAATGAGAC
          1 AAAAACGCCTCCACATGGAAGCACTTTTCCTTGAATGAGAC

                *                  **          *      
       1027 AAAACCGCCTCCACATAGG-AGCGTTTTTCCTTGACTGAGAC
          1 AAAAACGCCTCCACAT-GGAAGCACTTTTCCTTGAATGAGAC

                  
       1068 AAAAAC
          1 AAAAAC

       1074 ACACTGAAAA


Statistics
Matches: 71,  Mismatches: 16, Indels: 2
        0.80            0.18        0.02

Matches are distributed among these distances:
  41   70  0.99
  42    1  0.01

ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25


Consensus pattern (41 bp):   
AAAAACGCCTCCACATGGAAGCACTTTTCCTTGAATGAGAC

Found at i:9098 original size:21 final size:20

Alignment explanation


    Indices: 9074--9118  Score: 58
    Period size: 19  Copynumber: 2.3  Consensus size: 20

       9064 TATTTTTTAA

                                 
       9074 AATAATTAAAAAATAAATATT
          1 AATAATT-AAAAATAAATATT

                       *        
       9095 AATAA-TAAAATTAAATATT
          1 AATAATTAAAAATAAATATT

                  
       9114 -ATAAT
          1 AATAAT

       9119 AATATTGTAA


Statistics
Matches: 22,  Mismatches: 1, Indels: 4
        0.81            0.04        0.15

Matches are distributed among these distances:
  18    4  0.18
  19   12  0.55
  20    1  0.05
  21    5  0.23

ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36


Consensus pattern (20 bp):   
AATAATTAAAAATAAATATT

Found at i:9109 original size:19 final size:18

Alignment explanation


    Indices: 9082--9120  Score: 60
    Period size: 19  Copynumber: 2.1  Consensus size: 18

       9072 AAAATAATTA

                               
       9082 AAAAATAAATATTAATAAT
          1 AAAAATAAATATT-ATAAT

                *             
       9101 AAAATTAAATATTATAAT
          1 AAAAATAAATATTATAAT

              
       9119 AA
          1 AA

       9121 TATTGTAAAG


Statistics
Matches: 19,  Mismatches: 1, Indels: 1
        0.90            0.05        0.05

Matches are distributed among these distances:
  18    7  0.37
  19   12  0.63

ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33


Consensus pattern (18 bp):   
AAAAATAAATATTATAAT
Done.