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Table 1 VNTR locus characteristics at genomes of N. meningitidis strains Z2491, MC58 and FAM18.

From: Use of a multilocus variable-number tandem repeat analysis method for molecular subtyping and phylogenetic analysis of Neisseria meningitidis isolates

VNTR locusa

Consensus sequence(s) of repeat unitb

Length of repeat unit (bp)

Locus in Z2491

Locus in MC58

Locus in FAM18

Function (Reference or locus_tagc)

   

Location

Number of repeat unit

Location

Number of repeat unit

Location

Number of repeat unit

 

NMTR1 (VNTR01)

CAAACAA

7

814844–815018

25

657240 – 657484

35

601072 – 601274

29

glycosyl transferase [23]

NMTR2

CATTTCT

7

920757 – 920875

17

773274 – 773301

4

716022 – 716154

19

Unknown

NMTR6

GCTTCAGTTACAGCTTCTTTG

21

1603619 – 1603660

2

1518318 – 1518359

2

1407985 – 1408068

4

membrane protein (NMA1680)

NMTR7

CAAG

4

1638925 – 1638972

12

1556771 – 1556814

11

1444059 – 1444090

8

hypothetical protein (NMB1507)

NMTR9 (VNTR06 & VNTR08)

GCCAAAGTT

9

2158594 – 2158514

9

285906 – 285968

7

277433 – 277666

26

rotamase (NMA2206)

NMTR9a

CCGCTGCTACTGCCGCTGCTGAAGCACCTG

30

1100635 – 1100694

2

970825 – 970854

1

932818 – 932907

3

dihydrolipoamide succinyltransferase E2 component (NMA1150)

NMTR9b

TACGGCTGCCGCGTCAAA

18

1385171 – 1385206

2

1293181 – 1293216

2

1191565 – 1191582

1

murein hydrolase (NMA1488)

NMTR9c

CGGATACGCTCTTGG

15

1446130 – 1446174

3

1353481 – 1353510

2

1250095 – 1250139

3

hypothetical protein (NMA1547)

NMTR10

CAGATT

6

2058538 – 2058515

4

386427 – 386480

9

1824619 – 1824596

4

DNA-directed RNA polymerase-β-chain (NMA0141)

NMTR12 (VNTR02)

a:GGGCTGTAGAGAT b: GGCTGTAGAGAT

13, 12

1234098 – 1234135

3 = 2a1b

1131164 – 1311531

29 = 20a9b

1043723 – 1044023

24 = 13a11b

Unknown

NMTR18

GGGTAGCGG

9

2052950 – 2052967

2

392028 – 392045

2

1819003 – 1819047

5

aldose 1-epimerase (NMA2099)

NMTR19

CGTATTTTCCCAT

13

2075417 – 2075442

2

369378 – 369403

2

1844470 – 1844534

5

Unknown

  1. a Loci in parentheses have previouslybeen characterized by Yazdankhah et al.[20]
  2. bNMTR12 is a compound tandem repeat locus with 12- and 13-bp repeat units, arranged in variable numbers and sequences.
  3. cLocus tag in parentheses are based on gene annotation of N. meningitidis strain Z2491 (GenBank accession no. AL157959), except the NMTR7 locus, which is based on gene annotation of strain MC58 (GenBank accession no. AE002098).