Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008826.1 Kokia drynarioides strain JFW-HI SEQ_123510, 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: 5172
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33


Found at i:2947 original size:21 final size:21

Alignment explanation


    Indices: 2921--2963  Score: 77
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       2911 AGCCCTTTAA

                    *            
       2921 ATGTGGTTGCGCATCACGAAC
          1 ATGTGGTTACGCATCACGAAC

                                 
       2942 ATGTGGTTACGCATCACGAAC
          1 ATGTGGTTACGCATCACGAAC

             
       2963 A
          1 A

       2964 GGTTGAGATG


Statistics
Matches: 21,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  21   21  1.00

ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23


Consensus pattern (21 bp):   
ATGTGGTTACGCATCACGAAC

Found at i:3520 original size:18 final size:18

Alignment explanation


    Indices: 3471--3520  Score: 55
    Period size: 18  Copynumber: 2.8  Consensus size: 18

       3461 GTGCAGCACA

                       *  * * 
       3471 TTGCATGAAATACATGTG
          1 TTGCATGAAATGCACGAG

                 *   *        
       3489 TTGCAAGAAGTGCACGAG
          1 TTGCATGAAATGCACGAG

                          
       3507 TTGCATGAAATGCA
          1 TTGCATGAAATGCA

       3521 TGGGATGCAC


Statistics
Matches: 25,  Mismatches: 7, Indels: 0
        0.78            0.22        0.00

Matches are distributed among these distances:
  18   25  1.00

ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26


Consensus pattern (18 bp):   
TTGCATGAAATGCACGAG

Found at i:3697 original size:15 final size:15

Alignment explanation


    Indices: 3662--3698  Score: 58
    Period size: 15  Copynumber: 2.5  Consensus size: 15

       3652 TGGTTGGGTC

                           
       3662 CATGCTCACAACATT
          1 CATGCTCACAACATT

                            
       3677 -ATTGCTCACAACATT
          1 CA-TGCTCACAACATT

                   
       3692 CATGCTC
          1 CATGCTC

       3699 GCATCAAAGG


Statistics
Matches: 20,  Mismatches: 0, Indels: 4
        0.83            0.00        0.17

Matches are distributed among these distances:
  14    1  0.05
  15   18  0.90
  16    1  0.05

ACGTcount: A:0.30, C:0.32, G:0.08, T:0.30


Consensus pattern (15 bp):   
CATGCTCACAACATT
Done.