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Table 5 Relative synonymous codon usage (RSCU) patterns across the plastid genomes

From: Complete plastid genome sequences suggest strong selection for retention of photosynthetic genes in the parasitic plant genus Cuscuta

AA Codon N RSCU AA Codon N RSCU
A. Ipomoea Cumulative Codon Usage
Phe UUU 907 1.33 Ser UCU 463 1.53
  UUC 455 0.67   UCC 291 0.96
Leu UUA 742 1.91   UCA 344 1.14
  UUG 467 1.2   UCG 184 0.61
Tyr UAU 649 1.6 Cys UGU 211 1.45
  UAC 160 0.4   UGC 80 0.55
ter UAA   0 ter UGA   0
ter UAG   0 Trp UGG 407 1
Leu CUU 523 1.35 Pro CCU 347 1.49
  CUC 149 0.38   CCC 194 0.84
  CUA 314 0.81   CCA 257 1.11
  CUG 135 0.35   CCG 131 0.56
His CAU 392 1.49 Arg CGU 284 1.23
  CAC 135 0.51   CGC 107 0.46
Gln CAA 631 1.56   CGA 315 1.37
  CAG 180 0.44   CGG 112 0.49
Ile AUU 957 1.5 Thr ACU 505 1.61
  AUC 389 0.61   ACC 257 0.82
  AUA 562 0.88   ACA 358 1.14
Met AUG 511 1   ACG 132 0.42
Asn AAU 828 1.54 Ser AGU 377 1.25
  AAC 247 0.46   AGC 155 0.51
Lys AAA 938 1.49 Arg AGA 410 1.78
  AAG 317 0.51   AGG 153 0.66
Val GUU 437 1.45 Ala GCU 591 1.83
  GUC 148 0.49   GCC 197 0.61
  GUA 448 1.49   GCA 353 1.09
  GUG 170 0.57   GCG 152 0.47
Asp GAU 698 1.58 Gly GGU 508 1.3
  GAC 186 0.42   GGC 171 0.44
Glu GAA 900 1.47   GGA 579 1.48
  GAG 326 0.53   GGG 304 0.78
B. C. exaltata Cumulative Codon Usage
Phe UUU 769 1.41 Ser UCU 355 1.55
  UUC 321 0.59   UCC 214 0.94
Leu UUA 627 1.9   UCA 260 1.14
  UUG 424 1.29   UCG 149 0.65
Tyr UAU 517 1.62 Cys UGU 150 1.46
  UAC 123 0.38   UGC 55 0.54
ter UAA   0 ter UGA   0
ter UAG   0 Trp UGG 322 1
Leu CUU 405 1.23 Pro CCU 263 1.33
  CUC 130 0.39   CCC 187 0.95
  CUA 264 0.8   CCA 201 1.02
  CUG 128 0.39   CCG 139 0.7
His CAU 350 1.48 Arg CGU 242 1.22
  CAC 122 0.52   CGC 102 0.51
Gln CAA 530 1.52   CGA 273 1.37
  CAG 168 0.48   CGG 117 0.59
Ile AUU 753 1.5 Thr ACU 428 1.67
  AUC 271 0.54   ACC 210 0.82
  AUA 482 0.96   ACA 280 1.09
Met AUG 385 1   ACG 105 0.41
Asn AAU 684 1.5 Ser AGU 299 1.31
  AAC 226 0.5   AGC 93 0.41
Lys AAA 860 1.56 Arg AGA 326 1.64
  AAG 243 0.44   AGG 135 0.68
Val GUU 372 1.42 Ala GCU 464 1.73
  GUC 132 0.5   GCC 186 0.69
  GUA 378 1.44   GCA 292 1.09
  GUG 165 0.63   GCG 133 0.49
Asp GAU 571 1.55 Gly GGU 395 1.2
  GAC 167 0.45   GGC 173 0.53
Glu GAA 716 1.48   GGA 462 1.4
  GAG 254 0.52   GGG 288 0.87
C. C. obtusiflora Cumulative Codon Usage
Phe UUU 649 1.51 Ser UCU 262 1.56
  UUC 213 0.49   UCC 138 0.82
Leu UUA 559 2.14   UCA 203 1.21
  UUG 292 1.12   UCG 108 0.64
Tyr UAU 392 1.71 Cys UGU 112 1.53
  UAC 67 0.29   UGC 34 0.47
ter UAA   0 ter UGA   0
ter UAG   0 Trp UGG 264 1
Leu CUU 323 1.24 Pro CCU 207 1.41
  CUC 88 0.34   CCC 109 0.74
  CUA 215 0.82   CCA 185 1.26
  CUG 92 0.35   CCG 88 0.6
His CAU 245 1.54 Arg CGU 188 1.39
  CAC 73 0.46   CGC 80 0.59
Gln CAA 425 1.51   CGA 202 1.49
  CAG 138 0.49   CGG 62 0.46
Ile AUU 593 1.59 Thr ACU 358 1.85
  AUC 189 0.51   ACC 121 0.62
  AUA 339 0.91   ACA 208 1.07
Met AUG 310 1   ACG 88 0.45
Asn AAU 543 1.53 Ser AGU 240 1.43
  AAC 167 0.47   AGC 57 0.34
Lys AAA 697 1.58 Arg AGA 207 1.53
  AAG 188 0.42   AGG 74 0.55
Val GUU 282 1.46 Ala GCU 348 1.61
  GUC 137 0.71   GCC 151 0.7
  GUA 235 1.22   GCA 253 1.17
  GUG 119 0.62   GCG 114 0.53
Asp GAU 399 1.53 Gly GGU 338 1.4
  GAC 123 0.47   GGC 126 0.52
Glu GAA 548 1.48   GGA 345 1.42
  GAG 194 0.52   GGG 160 0.66
  1. Calculations were made from all coding regions combined. Due to difference in genome content, the total number of codons was different for all taxa.