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Table 2 Primer characteristics [12] and calculated % diversity indices for each of the tandem repeats (TRs).

From: Multiple-locus variable number of tandem repeat analysis (MLVA) of Irish verocytotoxigenic Escherichia coliO157 from feedlot cattle: uncovering strain dissemination routes

Primer

Sequence 5' to 3'

Size [mer]

Tm °C

TR Sequence

TR size

*Diversity Index (%)

TR 1

-ACT GCA TGA TAA GCC TCA GG-

20

    
 

-CAC TGA AGC CTG TTC CGT TC-

20

57

-AAATAG-

6

77.0

TR 2

-CGC AGT TGA TAC CTA CGG -

18

    
 

-GGA AGG AAG CTG ATA GGT -

18

53

-TGGCTC-

6

92.2

TR 3

-TCT TGT CAA TAT AGA TTG G-

19

    
 

-TGA TTA AGC GTG TAC TGA -

18

50

-TATCTT-

6

77.6

TR 4

-GGT GAT GGC TTG ATA TTG A-

19

    
 

-GCC ACA CTG CGA GTA TAG AG-

20

53

-TGCAAA -

6

66.5

TR 5

-GTT GAT TAT CAT GGT ATG TC-

20

    
 

-GGA CAA CTT GTA GTA CAA G-

19

51

-AAGGTG -

6

66.1

TR 6

-GAT GGT TCG ACT AAC CGT TAT-

21

    
 

-TAG CAG ATG TTC GTT CCT-

18

53

-TTAAATAATCTACAGAAG -

18

55.9

TR 7

-CGC AGT GAT CAT TAT TAG C-

19

    
 

-TGC TGA AAC TGA CGA CCA GT-

20

50

-GACCAC-

6

71.3

  1. * Diversity is based on Simpson's index calculated using all fifty-four isolates