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Table 6 RSCU distances of the host pairs calculated from the RSCU values for the abundant codons (RSCU ≥1.6) in the LT-Ag genes and two domains of PyVs

From: Codon usage patterns of LT-Ag genes in polyomaviruses from different host species

Region Host pairs RSCU distances witin host pairs for abundant codons (RSCU≥1.6)
TTT TTA ATT TCT CCT ACT GCT AGA AGG Avg.
LT-Ag A–F 0.082 0.165b 0.406 0.676 0.134 0.244 0.111 0.521 0.780 0.346
A–H 0.558a 1.593a 0.522 0.680a 0.301 0.764a 0.507 2.855a 0.749 0.948
A–M 0.435 1.169 0.512 0.334 0.257 0.471 0.204 2.355 0.645 0.709
A–P 0.460 1.335 0.572a 0.601 0.385a 0.707 0.279 2.731 0.785a 0.873
F–H 0.477 1.428 0.117 0.004b 0.167 0.520 0.618a 2.335 0.032 0.633
F–M 0.353 1.004 0.107 0.342 0.123 0.227 0.315 1.834 0.135 0.493
F–P 0.378 1.170 0.166 0.074 0.251 0.463 0.389 2.210 0.005b 0.567
H–M 0.123 0.424 0.010b 0.346 0.044b 0.293 0.303 0.501 0.104 0.239
H–P 0.098 0.259 0.050 0.079 0.083 0.057b 0.228 0.125b 0.036 0.113
M–P 0.025b 0.166 0.060 0.267 0.127 0.236 0.075b 0.376 0.140 0.164
DnaJ A–H 1.682a 1.064 0.224b 1.896a 0.542 1.580 0.395 3.157a 0.151 1.188
A–M 0.511 0.662 0.561 1.566 0.669 1.668a 0.651 2.874 0.012b 1.019
A–P 1.476 1.230a 0.788a 1.664 1.304a 1.212 0.786a 2.447 0.449 1.262
H–M 1.171 0.402 0.338 0.330 0.127b 0.088b 0.256 0.283b 0.139 0.348
H–P 0.207b 0.166b 0.564 0.232 0.762 0.368 0.391 0.711 0.600a 0.444
M–P 0.965 0.568 0.226 0.098b 0.635 0.456 0.135b 0.427 0.461 0.441
Helicase A–F 0.142 0.494 0.489 0.633 0.653 0.003b 0.168 0.128 0.716 0.381
A–H 0.416 1.739a 0.492 0.435 0.106b 0.946 0.735a 2.628a 1.044a 0.949
A–M 0.386 1.074 0.647a 0.059 0.184 0.837 0.053b 2.052 0.737 0.670
A–P 0.363 1.349 0.594 0.049 0.445 1.013 0.599 2.502 0.949 0.873
F–H 0.558a 1.245 0.002b 1.069a 0.546 0.949 0.568 2.500 0.328 0.863
F–M 0.528 0.580 0.158 0.574 0.836 0.840 0.115 1.924 0.021b 0.620
F–P 0.505 0.854 0.104 0.585 1.098a 1.016a 0.431 2.374 0.232 0.800
H–M 0.029 0.665 0.155 0.495 0.290 0.110 0.682 0.576 0.307 0.368
H–P 0.053 0.390 0.102 0.484 0.552 0.066 0.136 0.126b 0.096 0.223
M–P 0.024b 0.274b 0.053 0.011b 0.262 0.176 0.546 0.450 0.212 0.223
  1. A–F avian–fish, A–H avian–human, A–M avian–non-primate mammals, A–P avian–non-human primate, F–H fish–human, F–M fish–non-primate mammals, F–P fish–non-human primate, H–M human–non-primate mammals, H–P human–non-human primate, M–P non-primate mammals–non-human primate; alargest RSCU distances among the host pairs for the corresponding codon; bsmallest RSCU distances among the host pairs for the corresponding codon