Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008473.1 Kokia drynarioides strain JFW-HI SEQ_123148, 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: 10231
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30


Found at i:3648 original size:11 final size:11

Alignment explanation


    Indices: 3621--3650  Score: 51
    Period size: 12  Copynumber: 2.6  Consensus size: 11

       3611 AACTCGTGCA

                       
       3621 TCCAAAAACAC
          1 TCCAAAAACAC

                        
       3632 TCCCAAAAACAC
          1 T-CCAAAAACAC

                   
       3644 TCCAAAA
          1 TCCAAAA

       3651 CCTCCATCTC


Statistics
Matches: 18,  Mismatches: 0, Indels: 2
        0.90            0.00        0.10

Matches are distributed among these distances:
  11    7  0.39
  12   11  0.61

ACGTcount: A:0.53, C:0.37, G:0.00, T:0.10


Consensus pattern (11 bp):   
TCCAAAAACAC

Found at i:7551 original size:46 final size:46

Alignment explanation


    Indices: 7484--7579  Score: 174
    Period size: 46  Copynumber: 2.1  Consensus size: 46

       7474 TTAGTGAACC

                                                *         
       7484 ATTTCCACCCTTTACACTTGATCACTTTTATATTTCTTGCATTTAA
          1 ATTTCCACCCTTTACACTTGATCACTTTTATATTTCCTGCATTTAA

                           *                              
       7530 ATTTCCACCCTTTACGCTTGATCACTTTTATATTTCCTGCATTTAA
          1 ATTTCCACCCTTTACACTTGATCACTTTTATATTTCCTGCATTTAA

                
       7576 ATTT
          1 ATTT

       7580 TCATTACTCA


Statistics
Matches: 48,  Mismatches: 2, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  46   48  1.00

ACGTcount: A:0.23, C:0.24, G:0.05, T:0.48


Consensus pattern (46 bp):   
ATTTCCACCCTTTACACTTGATCACTTTTATATTTCCTGCATTTAA

Found at i:7959 original size:19 final size:19

Alignment explanation


    Indices: 7933--7973  Score: 50
    Period size: 19  Copynumber: 2.2  Consensus size: 19

       7923 GTTATTGCAA

                                
       7933 TTAATTTT-ACTTAATTT-T
          1 TTAATTTTGA-TTAATTTGT

                                
       7951 TTAACTTTTGATTAATTTGT
          1 TTAA-TTTTGATTAATTTGT

               
       7971 TTA
          1 TTA

       7974 TCGTTCTTTT


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

Matches are distributed among these distances:
  18    4  0.20
  19   11  0.55
  20    5  0.25

ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63


Consensus pattern (19 bp):   
TTAATTTTGATTAATTTGT
Done.