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Marcel Costa
2023-11-28 10:33:25 +01:00
parent e7ab6b6cd2
commit 119bdbbe2e
8 changed files with 447 additions and 0 deletions
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Scripts/Human.Codon.Usage
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TTT 17.1(189379) TCT 15.4(171196) TAT 12.0(132715) TGT 10.6(117458)
TTC 19.5(216388) TCC 17.7(196012) TAC 14.6(161579) TGC 12.2(135489)
TTA 7.8(86682) TCA 12.5(139095) TAA 0.5(5404) TGA 0.9(9518)
TTG 12.9(143507) TCG 4.5(50249) TAG 0.4(4328) TGG 12.1(134648)
CTT 13.3(147569) CCT 17.9(198345) CAT 11.1(123609) CGT 4.5(49921)
CTC 19.2(212802) CCC 20.3(225420) CAC 15.2(168062) CGC 10.5(115976)
CTA 7.2(79488) CCA 17.3(192119) CAA 12.7(140427) CGA 6.2(68859)
CTG 39.4(437308) CCG 7.3(81354) CAG 34.9(387120) CGG 11.7(129331)
ATT 15.8(175259) ACT 13.3(147134) AAT 17.1(190114) AGT 12.6(139465)
ATC 19.9(220634) ACC 18.4(203602) AAC 18.6(206688) AGC 19.9(220505)
ATA 7.5(82922) ACA 15.1(167136) AAA 25.1(278169) AGA 12.0(133268)
ATG 21.3(236510) ACG 6.0(66200) AAG 31.9(353825) AGG 11.9(131616)
GTT 10.9(121302) GCT 18.4(204091) GAT 22.3(246943) GGT 10.6(117456)
GTC 14.0(155761) GCC 28.1(311996) GAC 25.1(278549) GGC 22.3(247607)
GTA 7.1(78882) GCA 16.1(178106) GAA 30.4(336665) GGA 16.5(183190)
GTG 27.6(305878) GCG 7.6(84501) GAG 40.7(451726) GGG 16.5(182999)
Scripts/pca_HAdV5_EGFP_MONO_EMM_BH_VCN_APIS_MOD_PDT_ADAPT_Tox.txt
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codon IV2a pol U_exon pTP 52K pIIIa III fiber pVII V X pVI hexon protease DBP 100K 33K IX 22K pVIII E3_12_5K E3_CR1_alpha0 E3_gp19K 10_5K E3_RID_alpha E3_RID_beta E3_14_7K E4_ORF6_7 E4_34K E4_ORF4 E4_ORF3 E4_ORFB E1B55K E1A E1B19K E4_ORF1 GFP_DEopt APIS_BH OPT_BH GFP_opt PH20 Tox
GCG "0,24" "0,26" "0,33" "0,14" "0,4" "0,47" "0,36" "0,05" "0,36" "0,44" "0,45" "0,18" "0,15" "0,07" "0,62" "0,19" "0,35" "0,05" "0,17" "0,37" "0,17" 0 "0,1" "0,29" "0,38" "0,2" "0,25" "0,2" "0,14" "0,36" 0 "0,13" "0,11" "0,29" "0,29" "0,1" 0 "0,57" 0 0 0 "0,32"
GCA "0,18" "0,12" "0,33" "0,08" "0,2" "0,18" "0,2" "0,2" "0,12" "0,09" "0,09" "0,12" "0,11" 0 "0,06" "0,15" "0,41" "0,27" "0,33" "0,05" "0,17" 0 "0,1" 0 "0,13" "0,1" "0,25" 0 0 "0,09" 0 "0,13" "0,28" "0,07" "0,07" "0,1" "0,88" "0,04" "0,04" 0 "0,26" "0,21"
GCT "0,12" "0,06" 0 "0,03" "0,13" "0,1" "0,13" "0,32" "0,09" "0,09" 0 "0,06" "0,31" "0,07" "0,13" "0,12" "0,15" "0,27" "0,22" "0,26" "0,17" 0 "0,6" "0,14" "0,25" "0,2" 0 "0,6" "0,29" "0,36" "0,38" "0,5" "0,33" "0,29" "0,43" "0,5" "0,13" "0,04" "0,22" 0 "0,48" "0,25"
GCC "0,45" "0,56" "0,33" "0,75" "0,27" "0,25" "0,31" "0,43" "0,42" "0,38" "0,45" "0,65" "0,44" "0,86" "0,19" "0,54" "0,09" "0,41" "0,28" "0,32" "0,5" 1 "0,2" "0,57" "0,25" "0,5" "0,5" "0,2" "0,57" "0,18" "0,63" "0,25" "0,28" "0,36" "0,21" "0,3" 0 "0,35" "0,74" 1 "0,26" "0,22"
TGT "0,14" "0,08" 0 "0,29" 0 0 0 1 0 0 0 0 "0,29" "0,5" "0,15" "0,14" 0 0 "0,33" 0 "0,56" "0,5" "0,38" 0 "0,33" "0,2" "0,33" 1 "0,63" "0,75" "0,33" "0,5" "0,52" "0,5" "0,67" 1 1 0 0 0 "0,64" "0,83"
TGC "0,86" "0,92" 0 "0,71" 1 0 1 0 0 0 1 1 "0,71" "0,5" "0,85" "0,86" 1 0 "0,67" 0 "0,44" "0,5" "0,63" 1 "0,67" "0,8" "0,67" 0 "0,38" "0,25" "0,67" "0,5" "0,48" "0,5" "0,33" 0 0 1 1 1 "0,36" "0,17"
GAT "0,31" "0,21" "0,5" "0,31" "0,31" "0,17" "0,23" "0,48" "0,17" "0,47" 0 "0,4" "0,39" "0,4" "0,33" "0,23" "0,17" "0,71" 0 "0,11" "0,5" 0 "0,33" "0,67" 0 "0,6" "0,43" "0,67" "0,89" "0,33" "0,71" "0,57" "0,73" "0,44" "0,86" "0,5" "0,72" "0,36" "0,05" "0,11" "0,67" "0,82"
GAC "0,69" "0,79" "0,5" "0,69" "0,69" "0,83" "0,77" "0,52" "0,83" "0,53" 0 "0,6" "0,61" "0,6" "0,67" "0,78" "0,83" "0,29" 1 "0,89" "0,5" 0 "0,67" "0,33" 1 "0,4" "0,57" "0,33" "0,11" "0,67" "0,29" "0,43" "0,27" "0,56" "0,14" "0,5" "0,28" "0,64" "0,95" "0,89" "0,33" "0,18"
GAG "0,26" "0,66" "0,67" "0,59" "0,95" "0,84" "0,75" "0,26" 1 "0,61" 0 "0,67" "0,35" "0,67" "0,6" "0,68" "0,63" "0,67" "0,68" "0,5" "0,9" 0 "0,4" 0 "0,5" 0 "0,44" "0,6" "0,79" "0,33" "0,67" "0,63" "0,81" "0,63" "0,56" "0,86" "0,5" "0,67" "0,96" "0,94" "0,4" "0,5"
GAA "0,74" "0,34" "0,33" "0,41" "0,05" "0,16" "0,25" "0,74" 0 "0,39" 0 "0,33" "0,65" "0,33" "0,4" "0,32" "0,38" "0,33" "0,32" "0,5" "0,1" 0 "0,6" 0 "0,5" 1 "0,56" "0,4" "0,21" "0,67" "0,33" "0,38" "0,19" "0,38" "0,44" "0,14" "0,5" "0,33" "0,04" "0,06" "0,6" "0,5"
TTT "0,55" "0,46" 1 "0,48" "0,64" "0,42" "0,5" "0,89" "0,5" 1 0 "0,17" "0,6" "0,79" "0,47" "0,56" "0,5" "0,67" "0,25" "0,78" 1 "0,67" "0,63" "0,6" "0,83" "0,63" 1 1 1 "0,5" 1 1 "0,72" 1 "0,9" "0,82" "0,5" "0,25" "0,75" 0 "0,54" "0,67"
TTC "0,45" "0,54" 0 "0,52" "0,36" "0,58" "0,5" "0,11" "0,5" 0 1 "0,83" "0,4" "0,21" "0,53" "0,44" "0,5" "0,33" "0,75" "0,22" 0 "0,33" "0,38" "0,4" "0,17" "0,38" 0 0 0 "0,5" 0 0 "0,28" 0 "0,1" "0,18" "0,5" "0,75" "0,25" 1 "0,46" "0,33"
GGG "0,23" "0,19" 0 "0,22" "0,23" "0,32" "0,27" "0,1" "0,2" "0,1" 0 "0,13" "0,1" "0,33" "0,2" "0,11" 0 "0,33" "0,14" "0,18" 0 "0,4" 0 0 0 0 0 "0,13" "0,14" "0,25" "0,25" "0,4" "0,36" "0,33" "0,43" "0,11" 0 "0,26" 0 "0,14" "0,08" "0,15"
GGA "0,19" "0,29" "0,33" "0,35" "0,19" "0,12" "0,11" "0,35" "0,07" "0,19" "0,27" "0,09" "0,21" "0,08" "0,2" "0,34" "0,67" "0,33" "0,14" "0,32" "0,57" 0 0 "0,75" 1 "0,4" "0,57" "0,38" "0,14" "0,25" "0,38" 0 "0,21" "0,07" 0 0 "0,45" "0,17" "0,35" 0 "0,6" "0,13"
GGT "0,23" "0,16" "0,33" "0,05" "0,04" "0,15" "0,16" "0,19" "0,13" "0,19" "0,09" "0,17" "0,28" "0,17" "0,2" "0,21" "0,17" "0,17" "0,14" "0,14" "0,14" "0,4" "0,67" 0 0 0 "0,29" "0,13" "0,36" "0,5" "0,13" "0,4" "0,21" "0,47" "0,29" "0,67" "0,41" "0,13" 0 0 "0,24" "0,48"
GGC "0,35" "0,35" "0,33" "0,38" "0,54" "0,41" "0,46" "0,35" "0,6" "0,52" "0,64" "0,61" "0,41" "0,42" "0,4" "0,34" "0,17" "0,17" "0,57" "0,36" "0,29" "0,2" "0,33" "0,25" 0 "0,6" "0,14" "0,38" "0,36" 0 "0,25" "0,2" "0,23" "0,13" "0,29" "0,22" "0,14" "0,43" "0,65" "0,86" "0,08" "0,25"
CAT "0,21" "0,16" 0 "0,25" "0,36" "0,3" "0,3" "0,43" 0 "0,5" 0 0 "0,19" 0 "0,19" "0,25" "0,5" 0 "0,5" 0 "0,43" 0 "0,5" "0,33" "0,33" "0,5" 0 "0,67" "0,25" "0,5" "0,33" "0,75" "0,38" "0,27" "0,5" 0 "0,22" "0,75" 0 0 "0,33" "0,82"
CAC "0,79" "0,84" 0 "0,75" "0,64" "0,7" "0,7" "0,57" 1 "0,5" 1 1 "0,81" 1 "0,81" "0,75" "0,5" 0 "0,5" 1 "0,57" 1 "0,5" "0,67" "0,67" "0,5" 1 "0,33" "0,75" "0,5" "0,67" "0,25" "0,62" "0,73" "0,5" 1 "0,78" "0,25" 1 1 "0,67" "0,18"
ATA "0,27" "0,19" "0,5" "0,09" "0,54" "0,36" "0,13" "0,38" "0,17" "0,11" 0 "0,13" "0,26" "0,33" "0,19" "0,17" "0,67" 0 "0,33" "0,21" 0 "0,14" "0,18" "0,13" "0,18" "0,33" "0,13" "0,5" "0,19" "0,4" "0,3" "0,57" "0,24" "0,08" "0,6" "0,33" 0 "0,25" 0 0 "0,48" "0,03"
ATT "0,23" "0,14" "0,5" "0,27" "0,15" "0,21" "0,26" "0,58" "0,5" "0,33" "0,6" "0,38" "0,5" "0,67" "0,25" "0,33" "0,33" 1 0 "0,5" "0,67" "0,71" "0,73" "0,38" "0,36" "0,33" "0,75" "0,25" "0,31" "0,2" "0,6" "0,14" "0,48" "0,5" "0,2" "0,67" "0,92" "0,19" "0,25" 0 "0,35" "0,49"
ATC "0,5" "0,67" 0 "0,64" "0,31" "0,43" "0,61" "0,04" "0,33" "0,56" "0,4" "0,5" "0,24" 0 "0,56" "0,5" 0 0 "0,67" "0,29" "0,33" "0,14" "0,09" "0,5" "0,45" "0,33" "0,13" "0,25" "0,5" "0,4" "0,1" "0,29" "0,29" "0,42" "0,2" 0 "0,08" "0,56" "0,75" 1 "0,16" "0,49"
AAG "0,4" "0,56" "0,8" "0,75" "0,91" "0,71" "0,63" "0,27" "0,67" "0,69" 0 "0,75" "0,61" "0,5" "0,85" "0,61" "0,5" 1 "0,75" 1 "0,33" 0 "0,4" "0,33" 0 "0,25" "0,56" 1 "0,5" "0,5" 1 0 "0,76" 0 "0,78" 0 "0,75" "0,41" 1 "0,95" "0,26" "0,21"
AAA "0,6" "0,44" "0,2" "0,25" "0,09" "0,29" "0,37" "0,73" "0,33" "0,31" 0 "0,25" "0,39" "0,5" "0,15" "0,39" "0,5" 0 "0,25" 0 "0,67" 1 "0,6" "0,67" 0 "0,75" "0,44" 0 "0,5" "0,5" 0 1 "0,24" 1 "0,22" 0 "0,25" "0,59" 0 "0,05" "0,74" "0,79"
TTG "0,1" "0,08" "0,29" "0,14" "0,13" "0,18" "0,25" "0,2" 0 "0,14" "0,13" "0,11" "0,12" "0,12" "0,18" "0,17" "0,05" "0,5" "0,18" "0,07" "0,07" 0 "0,15" "0,2" "0,14" 0 "0,2" "0,29" "0,24" "0,2" "0,47" "0,33" "0,19" "0,26" "0,3" "0,17" 0 "0,24" 0 0 "0,21" "0,31"
TTA 0 "0,02" 0 "0,05" 0 "0,01" 0 "0,03" 0 0 0 0 "0,01" 0 0 "0,01" 0 0 "0,09" 0 "0,13" 0 "0,08" 0 "0,07" "0,18" 0 "0,07" "0,07" 0 "0,05" 0 "0,03" "0,13" "0,04" "0,08" 0 "0,08" 0 0 "0,04" "0,22"
CTG "0,4" "0,29" "0,57" "0,22" "0,65" "0,54" "0,5" "0,06" "0,67" "0,52" "0,38" "0,79" "0,28" "0,29" "0,56" "0,24" "0,63" "0,31" "0,36" "0,29" "0,33" 0 "0,08" "0,1" "0,07" "0,27" "0,2" "0,43" "0,45" "0,4" "0,11" "0,33" "0,46" "0,22" "0,52" "0,42" "0,76" "0,26" "0,97" "0,86" "0,15" "0,2"
CTA "0,08" "0,14" "0,14" "0,09" "0,05" "0,16" "0,09" "0,34" 0 "0,17" 0 "0,05" "0,18" "0,06" "0,21" "0,21" "0,05" 0 "0,09" "0,07" "0,07" "0,2" "0,23" "0,2" 0 "0,27" "0,2" "0,14" "0,1" 0 0 "0,06" "0,14" 0 "0,04" "0,08" 0 "0,16" 0 0 "0,13" "0,09"
CTT "0,22" "0,14" 0 "0,09" "0,1" "0,07" "0,11" "0,23" "0,33" "0,1" "0,13" "0,05" "0,31" "0,12" "0,05" "0,22" "0,16" "0,19" "0,09" "0,36" "0,27" "0,4" "0,23" "0,4" "0,43" "0,27" "0,2" "0,07" "0,1" "0,4" "0,37" "0,28" "0,16" "0,35" "0,09" "0,25" 0 "0,08" "0,03" 0 "0,3" "0,11"
CTC "0,2" "0,34" 0 "0,41" "0,07" "0,03" "0,05" "0,14" 0 "0,07" "0,38" 0 "0,09" "0,41" 0 "0,14" "0,11" 0 "0,18" "0,21" "0,13" "0,4" "0,23" "0,1" "0,29" 0 "0,2" 0 "0,03" 0 0 0 "0,03" "0,04" 0 0 "0,24" "0,18" 0 "0,14" "0,17" "0,07"
AAT "0,17" "0,15" 1 "0,07" "0,14" "0,06" "0,21" "0,43" "0,17" 0 0 "0,33" "0,37" "0,1" "0,17" "0,12" 0 "0,6" 0 "0,2" "0,5" "0,5" "0,67" "0,38" 0 "0,8" "0,5" "0,57" "0,38" 0 1 1 "0,52" "0,43" "0,4" 1 "0,62" "0,29" 0 0 "0,72" "0,47"
AAC "0,83" "0,85" 0 "0,93" "0,86" "0,94" "0,79" "0,57" "0,83" 1 0 "0,67" "0,63" "0,9" "0,83" "0,88" 1 "0,4" 1 "0,8" "0,5" "0,5" "0,33" "0,63" 0 "0,2" "0,5" "0,43" "0,63" 1 0 0 "0,48" "0,57" "0,6" 0 "0,38" "0,71" 1 1 "0,28" "0,53"
CCG "0,31" "0,28" 0 "0,47" "0,15" "0,46" "0,24" "0,08" "0,14" "0,27" "0,4" "0,23" "0,07" "0,07" "0,31" "0,31" "0,38" "0,25" "0,45" "0,14" "0,2" 0 0 0 0 "0,08" 0 "0,29" "0,14" 0 0 "0,5" "0,09" "0,24" "0,67" "0,22" 0 "0,55" 0 0 "0,11" "0,64"
CCA "0,1" "0,17" 1 "0,09" "0,15" "0,12" "0,14" "0,28" "0,29" "0,09" "0,2" "0,12" "0,21" "0,21" "0,22" "0,15" "0,05" "0,13" "0,1" "0,1" 0 1 "0,67" "0,4" "0,33" "0,31" "0,2" "0,14" "0,21" "0,2" 0 0 "0,23" "0,17" "0,17" 0 "0,6" "0,05" 0 0 "0,32" "0,18"
CCT "0,23" "0,16" 0 "0,13" "0,31" "0,07" "0,24" "0,38" 0 "0,12" 0 "0,23" "0,32" 0 "0,16" "0,15" "0,05" "0,13" "0,05" "0,24" "0,2" 0 "0,17" 0 "0,33" "0,15" "0,4" "0,36" "0,21" "0,2" 1 "0,38" "0,27" "0,37" "0,17" "0,67" "0,4" "0,25" "0,35" 0 "0,36" "0,14"
CCC "0,36" "0,4" 0 "0,32" "0,38" "0,34" "0,38" "0,26" "0,57" "0,52" "0,4" "0,42" "0,39" "0,71" "0,31" "0,39" "0,52" "0,5" "0,4" "0,52" "0,6" 0 "0,17" "0,6" "0,33" "0,46" "0,4" "0,21" "0,43" "0,6" 0 "0,13" "0,41" "0,22" 0 "0,11" 0 "0,15" "0,65" 1 "0,21" "0,05"
CAG "0,79" "0,76" "0,75" "0,78" "0,72" "0,84" "0,77" "0,16" "0,5" "0,87" 1 "0,36" "0,54" "0,83" "0,81" "0,61" "0,64" "0,83" "0,55" "0,73" "0,5" 1 "0,6" 0 1 "0,25" "0,6" "0,71" 1 1 "0,5" "0,4" "0,75" "0,88" "0,91" "0,75" "0,63" "0,65" 1 1 "0,32" "0,3"
CAA "0,21" "0,24" "0,25" "0,22" "0,28" "0,16" "0,23" "0,84" "0,5" "0,13" 0 "0,64" "0,46" "0,17" "0,19" "0,39" "0,36" "0,17" "0,45" "0,27" "0,5" 0 "0,4" 1 0 "0,75" "0,4" "0,29" 0 0 "0,5" "0,6" "0,25" "0,13" "0,09" "0,25" "0,38" "0,35" 0 0 "0,68" "0,7"
AGG "0,2" "0,09" "0,4" "0,12" "0,11" "0,09" "0,03" "0,1" "0,12" "0,09" "0,12" "0,11" "0,14" "0,09" "0,08" "0,07" "0,29" 0 "0,08" "0,06" "0,09" "0,2" "0,25" 0 "0,33" 0 "0,25" "0,29" "0,29" "0,2" "0,33" "0,13" "0,49" "0,22" "0,14" "0,25" "0,43" "0,36" 0 0 "0,12" 0
AGA "0,14" "0,03" "0,6" "0,05" "0,02" "0,06" "0,11" "0,6" "0,02" "0,04" "0,12" 0 "0,2" 0 "0,03" "0,08" "0,12" 0 "0,08" "0,12" "0,09" "0,4" "0,25" "0,25" "0,33" "0,4" "0,13" 0 0 "0,2" "0,22" "0,13" "0,14" "0,33" "0,29" "0,13" "0,43" "0,14" "0,36" 0 "0,41" "0,05"
CGG "0,09" "0,1" 0 "0,05" "0,3" "0,26" "0,2" 0 "0,12" "0,11" "0,18" "0,06" "0,09" 0 "0,32" "0,1" "0,06" "0,13" 0 "0,12" "0,27" 0 0 0 0 0 0 "0,21" "0,29" "0,2" "0,11" "0,13" "0,11" "0,11" "0,29" "0,25" 0 "0,21" 0 0 "0,12" 0
CGA "0,2" "0,09" 0 "0,05" "0,07" "0,02" "0,03" 0 "0,12" "0,17" "0,06" "0,22" "0,05" "0,09" "0,08" "0,16" "0,18" 0 "0,08" "0,24" 0 0 0 "0,25" "0,17" "0,2" 0 "0,21" "0,13" "0,13" "0,11" "0,13" "0,03" 0 0 0 0 "0,18" 0 0 "0,18" "0,11"
CGT "0,09" "0,19" 0 "0,1" "0,07" "0,09" "0,06" 0 "0,05" "0,09" "0,29" "0,22" "0,11" "0,18" "0,08" "0,05" "0,12" "0,25" "0,25" "0,35" "0,09" 0 0 0 0 "0,2" "0,13" "0,14" "0,03" "0,07" 0 "0,25" "0,05" "0,11" "0,07" "0,13" 0 "0,04" 0 0 "0,06" "0,55"
CGC "0,29" "0,5" 0 "0,62" "0,43" "0,47" "0,57" "0,3" "0,57" "0,5" "0,24" "0,39" "0,41" "0,64" "0,41" "0,54" "0,24" "0,63" "0,5" "0,12" "0,45" "0,4" "0,5" "0,5" "0,17" "0,2" "0,5" "0,14" "0,26" "0,2" "0,22" "0,25" "0,19" "0,22" "0,21" "0,25" "0,14" "0,07" "0,64" 1 "0,12" "0,29"
AGT "0,08" "0,03" 0 0 "0,05" "0,19" "0,1" "0,19" "0,1" "0,11" 0 "0,08" "0,07" "0,15" "0,1" "0,1" "0,1" "0,05" "0,05" "0,14" "0,33" 0 "0,2" "0,2" 0 "0,18" "0,25" "0,18" "0,29" 0 0 "0,18" "0,03" "0,25" "0,13" 0 0 "0,12" 0 0 "0,26" "0,32"
AGC "0,21" "0,26" 1 "0,29" "0,68" "0,46" "0,48" "0,12" "0,3" "0,22" 0 "0,5" "0,18" "0,25" "0,34" "0,29" "0,3" "0,27" "0,4" "0,14" "0,33" "0,17" "0,6" 0 "0,33" "0,18" "0,25" "0,18" "0,24" 0 "0,5" "0,27" "0,42" "0,15" "0,25" 0 "0,22" "0,35" 1 "0,7" "0,24" "0,25"
TCG "0,08" "0,16" 0 "0,23" 0 "0,1" "0,14" 0 "0,2" "0,06" "0,5" "0,17" "0,12" "0,1" "0,17" "0,12" "0,2" "0,05" "0,15" "0,33" 0 0 0 0 0 0 "0,25" "0,09" 0 "0,38" 0 "0,09" "0,1" "0,1" 0 "0,17" 0 "0,24" 0 0 0 "0,14"
TCA 0 "0,14" 0 "0,03" "0,05" "0,04" "0,05" "0,31" 0 "0,11" 0 0 "0,15" "0,1" "0,1" "0,14" "0,1" "0,14" "0,15" "0,14" 0 "0,33" "0,2" 0 0 "0,09" "0,25" 0 0 0 0 "0,09" "0,03" "0,05" "0,06" "0,17" 0 0 0 0 "0,12" "0,1"
TCT "0,25" "0,05" 0 "0,1" "0,05" "0,06" "0,07" "0,21" 0 "0,11" 0 "0,13" "0,22" "0,2" "0,12" "0,07" "0,05" "0,23" 0 "0,1" 0 "0,5" 0 "0,6" "0,33" "0,27" 0 "0,45" "0,19" "0,38" "0,5" "0,36" "0,26" "0,35" "0,31" "0,67" "0,67" "0,06" 0 0 "0,24" "0,08"
TCC "0,38" "0,36" 0 "0,35" "0,18" "0,15" "0,17" "0,17" "0,4" "0,39" "0,5" "0,13" "0,27" "0,2" "0,17" "0,29" "0,25" "0,27" "0,25" "0,14" "0,33" 0 0 "0,2" "0,33" "0,27" 0 "0,09" "0,29" "0,25" 0 0 "0,16" "0,1" "0,25" 0 "0,11" "0,24" 0 "0,3" "0,15" "0,11"
ACG "0,11" "0,12" 0 "0,18" "0,36" "0,24" "0,12" "0,02" "0,15" "0,13" "0,5" "0,13" "0,14" "0,18" "0,24" "0,14" "0,11" "0,23" "0,09" "0,13" 0 1 0 0 "0,14" 0 0 "0,06" "0,28" "0,33" 0 "0,33" "0,07" "0,27" "0,2" 0 0 "0,53" 0 0 0 "0,23"
ACA 0 "0,07" 0 "0,06" "0,18" "0,18" "0,12" "0,36" "0,15" "0,16" 0 "0,27" "0,18" "0,09" "0,1" "0,14" "0,32" "0,08" "0,27" "0,2" 0 0 "0,26" "0,56" "0,29" "0,09" "0,08" "0,29" "0,28" "0,17" "0,67" 0 "0,19" "0,18" "0,2" 0 "0,38" 0 0 0 "0,41" "0,26"
ACT "0,21" "0,1" 1 "0,09" 0 "0,12" "0,12" "0,36" "0,31" "0,1" 0 "0,07" "0,26" "0,27" "0,1" "0,06" "0,26" "0,23" "0,09" "0,33" "0,33" 0 "0,37" 0 "0,29" "0,55" "0,17" "0,41" "0,22" "0,17" 0 0 "0,19" "0,09" "0,2" "0,25" "0,44" "0,06" "0,29" "0,06" "0,41" "0,07"
ACC "0,68" "0,71" 0 "0,68" "0,45" "0,45" "0,65" "0,26" "0,38" "0,61" "0,5" "0,53" "0,42" "0,45" "0,57" "0,66" "0,32" "0,46" "0,55" "0,33" "0,67" 0 "0,37" "0,44" "0,29" "0,36" "0,75" "0,24" "0,22" "0,33" "0,33" "0,67" "0,56" "0,45" "0,4" "0,75" "0,19" "0,41" "0,71" "0,94" "0,19" "0,44"
GTG "0,32" "0,36" 1 "0,37" "0,68" "0,74" "0,6" "0,26" "0,76" "0,52" 1 "0,58" "0,45" 0 "0,91" "0,4" "0,17" "0,5" "0,29" "0,5" "0,2" "0,5" "0,38" "0,2" "0,2" "0,33" "0,29" "0,44" "0,65" "0,31" "0,33" "0,38" "0,59" "0,5" "0,29" "0,32" "0,35" "0,54" "0,93" "0,72" "0,23" "0,44"
GTA "0,32" "0,18" 0 "0,1" "0,16" "0,09" "0,07" "0,26" "0,06" "0,15" 0 "0,26" "0,17" "0,5" "0,06" "0,16" "0,17" 0 0 "0,2" 0 0 0 "0,4" "0,1" 0 "0,29" 0 "0,09" "0,15" "0,11" 0 "0,26" "0,15" 0 "0,21" 0 "0,18" 0 "0,06" "0,29" "0,11"
GTT "0,16" "0,09" 0 "0,1" "0,12" "0,03" "0,07" "0,39" "0,06" "0,15" 0 "0,16" "0,25" "0,25" "0,03" "0,14" "0,33" "0,3" "0,43" "0,1" "0,4" "0,5" "0,5" "0,2" "0,3" "0,5" "0,14" "0,56" "0,22" "0,38" "0,44" "0,38" "0,13" "0,25" "0,29" "0,42" "0,47" "0,18" "0,07" 0 "0,43" "0,18"
GTC "0,21" "0,37" 0 "0,43" "0,04" "0,15" "0,25" "0,1" "0,12" "0,18" 0 0 "0,13" "0,25" 0 "0,3" "0,33" "0,2" "0,29" "0,2" "0,4" 0 "0,13" "0,2" "0,4" "0,17" "0,29" 0 "0,04" "0,15" "0,11" "0,25" "0,03" "0,1" "0,43" "0,05" "0,18" "0,11" 0 "0,22" "0,06" "0,27"
TAT "0,21" "0,14" 0 "0,1" "0,2" "0,2" "0,09" "0,47" "0,5" "0,33" 0 "0,5" "0,23" "0,29" "0,5" "0,1" "0,5" "0,5" 0 "0,13" "0,33" 1 "0,7" 1 "0,5" "0,4" 0 0 "0,27" "0,25" "0,5" "0,5" "0,4" "0,8" 0 "0,6" "0,55" "0,24" 0 "0,09" "0,59" "0,63"
TAC "0,79" "0,86" 1 "0,9" "0,8" "0,8" "0,91" "0,53" "0,5" "0,67" 0 "0,5" "0,77" "0,71" "0,5" "0,9" "0,5" "0,5" 1 "0,88" "0,67" 0 "0,3" 0 "0,5" "0,6" 1 1 "0,73" "0,75" "0,5" "0,5" "0,6" "0,2" 1 "0,4" "0,45" "0,76" 1 "0,91" "0,41" "0,38"
Scripts/tabla_cai_early_proteins.txt
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Name Length CAI %G+C %G+C(1) %G+C(2) %G+C(3) Nc
E1A 870 0.760 54.8 64.1 46.9 53.4 51.9
E1B19K 531 0.789 52.5 54.8 41.8 61.0 52.8
E1B55K 1491 0.798 52.6 52.7 45.5 59.6 48.5
E3_12.5K 324 0.783 54.0 63.9 40.7 57.4 60.1
E3_CR1-alpha0 192 0.691 44.3 42.2 45.3 45.3 40.4
E3_gp19K 483 0.753 40.0 39.8 37.3 42.9 53.1
10.5K 282 0.743 46.5 41.5 44.7 53.2 52.0
E3_RID-alpha 276 0.704 46.7 48.9 38.0 53.3 61.0
E3_RID-beta 399 0.739 46.1 45.1 48.1 45.1 58.5
E3_14.7K 387 0.749 48.8 54.3 35.7 56.6 51.5
E4_ORF6/7 453 0.755 51.7 53.6 49.7 51.7 52.9
E4_34K_(reversa_complementaria) 885 0.805 53.4 50.5 45.4 64.4 46.9
E4_ORF4_(reversa_complementaria) 345 0.714 54.5 55.7 49.6 58.3 60.6
E4_ORF3_(reversa_complementaria) 351 0.771 45.0 56.4 29.9 48.7 47.4
E4_ORFB_(reversa_complementaria) 393 0.698 48.3 60.3 35.1 49.6 55.6
E4_ORF1_(reversa_complementaria) 387 0.708 47.3 60.5 36.4 45.0 43.0
Scripts/tabla_cai_human_proteins.txt
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Scripts/tabla_cai_late_proteins.txt
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Name Length CAI %G+C %G+C(1) %G+C(2) %G+C(3) Nc
pol 3597 0.760 60.9 63.2 46.1 73.4 43.6
pTP 2016 0.772 62.9 66.2 45.2 77.2 41.3
52K 1248 0.798 63.3 70.7 43.3 76.0 40.8
pIIIa 1758 0.764 62.5 64.2 45.4 78.0 42.7
III 1716 0.804 58.7 57.0 44.4 74.8 42.1
pVII 597 0.767 70.4 68.8 65.3 76.9 41.7
V 1107 0.759 62.3 67.2 49.6 70.2 44.5
X 243 0.734 70.0 71.6 61.7 76.5 39.8
pVI 753 0.773 61.1 62.2 51.8 69.3 41.5
hexon 2859 0.767 49.0 51.6 38.7 56.7 52.4
protease 615 0.788 54.8 52.2 45.4 66.8 42.8
DBP(reversa_complementaria) 1590 0.769 59.7 60.8 44.3 74.2 42.1
100K 2424 0.751 58.5 65.2 42.6 67.6 46.7
33K 690 0.708 59.4 62.6 53.0 62.6 49.1
22K 591 0.758 61.9 61.9 51.8 72.1 49.8
pVIII 684 0.716 57.3 59.6 51.8 60.5 52.5
fiber 1746 0.702 44.2 49.7 45.5 37.3 46.6
Scripts/tabla_cai_viral_proteins.txt
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Name Length CAI %G+C %G+C(1) %G+C(2) %G+C(3) Nc
E1A 870 0.760 54.8 64.1 46.9 53.4 51.9
E1B19K 531 0.789 52.5 54.8 41.8 61.0 52.8
E1B55K 1491 0.798 52.6 52.7 45.5 59.6 48.5
IX 423 0.783 57.7 55.3 56.7 61.0 49.4
IVa2 1350 0.758 56.3 61.3 41.8 65.8 50.0
pol 3597 0.760 60.9 63.2 46.1 73.4 43.6
pTP 2016 0.772 62.9 66.2 45.2 77.2 41.3
52K 1248 0.798 63.3 70.7 43.3 76.0 40.8
pIIIa 1758 0.764 62.5 64.2 45.4 78.0 42.7
III 1716 0.804 58.7 57.0 44.4 74.8 42.1
pVII 597 0.767 70.4 68.8 65.3 76.9 41.7
V 1107 0.759 62.3 67.2 49.6 70.2 44.5
X 243 0.734 70.0 71.6 61.7 76.5 39.8
pVI 753 0.773 61.1 62.2 51.8 69.3 41.5
hexon 2859 0.767 49.0 51.6 38.7 56.7 52.4
protease 615 0.788 54.8 52.2 45.4 66.8 42.8
DBP(reversa_complementaria) 1590 0.769 59.7 60.8 44.3 74.2 42.1
100K 2424 0.751 58.5 65.2 42.6 67.6 46.7
33K 690 0.708 59.4 62.6 53.0 62.6 49.1
22K 591 0.758 61.9 61.9 51.8 72.1 49.8
pVIII 684 0.716 57.3 59.6 51.8 60.5 52.5
E3_12.5K 324 0.783 54.0 63.9 40.7 57.4 60.1
E3_CR1-alpha0 192 0.691 44.3 42.2 45.3 45.3 40.4
E3_gp19K 483 0.753 40.0 39.8 37.3 42.9 53.1
10.5K 282 0.743 46.5 41.5 44.7 53.2 52.0
E3_RID-alpha 276 0.704 46.7 48.9 38.0 53.3 61.0
E3_RID-beta 399 0.739 46.1 45.1 48.1 45.1 58.5
E3_14.7K 387 0.749 48.8 54.3 35.7 56.6 51.5
U_exon(reversa_complementaria) 168 0.830 45.8 50.0 30.4 57.1 30.1
fiber 1746 0.702 44.2 49.7 45.5 37.3 46.6
E4_ORF6/7 453 0.755 51.7 53.6 49.7 51.7 52.9
E4_34K_(reversa_complementaria) 885 0.805 53.4 50.5 45.4 64.4 46.9
E4_ORF4_(reversa_complementaria) 345 0.714 54.5 55.7 49.6 58.3 60.6
E4_ORF3_(reversa_complementaria) 351 0.771 45.0 56.4 29.9 48.7 47.4
E4_ORFB_(reversa_complementaria) 393 0.698 48.3 60.3 35.1 49.6 55.6
E4_ORF1_(reversa_complementaria) 387 0.708 47.3 60.5 36.4 45.0 43.0