Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005529.1 Kokia drynarioides strain JFW-HI SEQ_119620, 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, 957

Length: 1596
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41


Found at i:597 original size:16 final size:16

Alignment explanation


    Indices: 572--621  Score: 64
    Period size: 16  Copynumber: 3.1  Consensus size: 16

        562 TAATTATTGG

                            
        572 TTACAGCTCTATTCCA
          1 TTACAGCTCTATTCCA

                 *       *  
        588 TTACATCTCTATTTCA
          1 TTACAGCTCTATTCCA

                   * *      
        604 TTACAGCCCAATTCCA
          1 TTACAGCTCTATTCCA

              
        620 TT
          1 TT

        622 CCTGTGAACC


Statistics
Matches: 28,  Mismatches: 6, Indels: 0
        0.82            0.18        0.00

Matches are distributed among these distances:
  16   28  1.00

ACGTcount: A:0.26, C:0.30, G:0.04, T:0.40


Consensus pattern (16 bp):   
TTACAGCTCTATTCCA

Found at i:801 original size:12 final size:12

Alignment explanation


    Indices: 784--809  Score: 52
    Period size: 12  Copynumber: 2.2  Consensus size: 12

        774 TTTTTTGGTC

                        
        784 ATTGAGTACTCA
          1 ATTGAGTACTCA

                        
        796 ATTGAGTACTCA
          1 ATTGAGTACTCA

              
        808 AT
          1 AT

        810 AAAATGAATC


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  12   14  1.00

ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35


Consensus pattern (12 bp):   
ATTGAGTACTCA

Found at i:1186 original size:25 final size:26

Alignment explanation


    Indices: 1158--1217  Score: 70
    Period size: 25  Copynumber: 2.4  Consensus size: 26

       1148 TCATTTTATG

                              *      *
       1158 TTTATATATTCC-ATACATAAATAAT
          1 TTTATATATTCCAATACAAAAATAAA

                 *                    
       1183 TTTATTTA-TCCAATACAAAAATAAA
          1 TTTATATATTCCAATACAAAAATAAA

              *       
       1208 TTGATATATT
          1 TTTATATATT

       1218 TATTTCTTTA


Statistics
Matches: 28,  Mismatches: 5, Indels: 3
        0.78            0.14        0.08

Matches are distributed among these distances:
  24    3  0.11
  25   24  0.86
  26    1  0.04

ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43


Consensus pattern (26 bp):   
TTTATATATTCCAATACAAAAATAAA
Done.