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Table 4 Partition-wise strain determination of a poliovirus-2 (PV-2) sequence

From: RECOVIR: An application package to automatically identify some single stranded RNA viruses using capsid protein residues that uniquely distinguish among these viruses

Partition

Total no. of groups (Maximally matching group no.)

Matching residues (Numbering based on reference PEV-8¶ sequence)

Reference database strains present in maximally matching group

P2, P3

2(1)

40P 42L 44A 46E 48G 72E 124T 125Y 127R 150Q 155P 157G 169W 176S 191P 199Y 202F 203Y

All enteroviruses including various human (Coxsackie, echo and polio) strains and some animal strains like bovine and simian enteroviruses. Includes the PEV-8 strain but does not include the PEV-9 strain (More than 100 strains)

P4

3(2)

P3+ [61L 62Q 78L 106S 115S 131D 152L 170N 174S]

All of the P2/P3 partition strains except PEV-8 strains

P5

7(6)

P4+ [43T 55G 64T 84L 156H]

32 echoviruses, 21 coxsackieviruses, all polioviruses and 7 other human and animal enteroviruses (Total of ~60 strains)

P6

8(7)

P5+ [158G]

All polioviruses, 12 coxsackieviruses and 1 echovirus

P7, P8

14, 44£

**

 

P9

72(62)

P6+ [4K 19L 35N 47T 49E 51D 52T 60E 63A 66C 68F 69S 70L 73T 77Y 79M 80S 81R 83S 85M 90L 109T 113S 117I 119K 120F 123F 126W 129D 137L 138E 140K 153F 154T 166S 167Q 171A 172P 173N 175T 178Y 180R 184C 185P 187S 189R 192F 195V 197N 198Y 206D 207G 209F 216Y 217G 218I 221G 222D 225G 228S 230R 233N 242G 249F 250L 252P 253V 254N 256E 258Y 262P 264V 266Y 268A]

Poliovirus-2 strains

P10

75(64)

P9+ [11I 17N 33M 36Q 37G 45A 50S 57S 58T 71R 76E 103Y 121K 122A 130L 146N 147L 159A 179T 186A 200T 210D 227I 231M 232A 248I 251R 263L 265S 281P]

Poliovirus-2 strains

  1. **: Ambiguity: 2 or more groups have identical number of matches in both these partitions.
  2. ¶: Porcine enterovirus (NCBI accession no.: AF406813)
  3. £: No matching reference group for partitions P07, P08 due to ambiguity; Strains not shown for these two partitions. All strains of poliovirus serotypes (1, 2 & 3) cluster as an independent group in partition P8.
  4. The complete capsid sequence of input PV-2 target sequence (NCBI accession: DQ841140) was used as input. Symbol Pn+: Indicates "including all matching residues of the earlier partition Pn".