Dataset S2. Change-Of-Function Mutations in the C. Elegans Candidate Regions

Dataset S2. Change-of-function mutations in the C. elegans candidate regions

1. Chromosome III, 5-10.5 Mb, significant selection coefficient from transfer 1 to 12 2. Chromosome X, 7-9 Mb, significant selection coefficient from transfer 1 to 12 3. Chromosome X, 15.9-16.3 Mb, significant selection coefficient from transfer 1 to 12 4. Chromosome II, 9.8-12.5 Mb, significant selection coefficient from transfer 12 to 22 5. Chromosome III, 8-10.5 Mb, significant selection coefficient from transfer 12 to 22 6. Chromosome X, 9-10 Mb, significant selection coefficient from transfer 12 to 22

Note for all tables below: Change-of-function mutations found in the candidate regions of C. elegans genome. Mutations occurring in intergenic regions and introns, as well as synony- mous substitutions, are not included. A selection coeﬃcient for each SNP was estimated at two intervals of coevolution, from transfer 1 to transfer 12 (s1−12) and from transfer 12 to transfer 22 (s12−22). The corresponding q-values were obtained by controlling for false discovery rate using Benjamini and Hochberg method. Gene ontology terms (Biological process, GO.BP) were retrieved from UniprotKB

www.pnas.org/cgi/doi/10.1073/pnas.1810402115 1. Change-of-function mutations on chromosome III, 5-10.5 Mb, signiﬁcant selection coeﬃcient from transfer 1 to 12

Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 III 5054749 c.779G>A p.Arg260Lys missense WBGene00016680 C45G9.9 hypothetical protein -0.03 0.00348 -0.00 0.99335 III 5154017 c.375+3T>G splice and intron WBGene00021899 Y54H5A.1 hypothetical protein -0.03 0.04157 -0.02 0.85271 III 5157234 c.836A>T p.Glu279Val missense WBGene00021902 oxy-4 Probable cytosolic Fe-S clus- iron-sulfur cluster assembly 0.07 0.00258 0.02 0.84490 ter assembly factor oxy-4 III 5198397 c.1153T>A p.Cys385Ser missense WBGene00001262 emb-8 DPH–cytochrome P450 re- eggshell formation; lipid biosynthetic 0.07 0.00380 0.02 0.72182 ductase process III 5277090 c.935C>T p.Ala312Val missense WBGene00006590 toc-1 similar to Transporter Of di- regulation of sequestering of zinc ion; re- 0.06 0.00132 0.02 0.66335 valent Cations sponse to zinc ion III 5277090 c.989C>T p.Ala330Val missense WBGene00006590 toc-1 similar to Transporter Of di- same as above 0.06 0.00132 0.02 0.66335 valent Cations III 5346432 c.1665T>A p.Asp555Glu missense WBGene00021311 Y32H12A.2 hypothetical protein mRNA export from nucleus; positive reg- -0.04 0.00231 0.01 0.99428 ulation of DNA-templated transcription, elongation III 5346432 c.1671T>A p.Asp557Glu missense WBGene00021311 Y32H12A.2 hypothetical protein same as above -0.04 0.00231 0.01 0.99428 III 5395730 c.4552C>T p.Pro1518Ser missense WBGene00021316 Y32H12A.8 hypothetical protein 0.06 0.00312 0.01 0.93611 III 5466728 c.1055+4T>C splice and intron WBGene00018609 F48E8.2 hypothetical protein positive regulation of cell proliferation; -0.05 0.01699 -0.02 0.92818 regulation of transcription elongation from RNA polymerase II promoter III 5478746 c.179A>G p.Asp60Gly missense WBGene00019835 R02F2.6 hypothetical protein -0.05 0.00065 -0.00 0.95410 III 5521730 c.301A>C p.Asn101His missense WBGene00017029 D1044.4 ncR -0.05 0.00201 III 5546143 c.1066G>A p.Asp356Asn missense WBGene00017027 D1044.1 Uncharacterized kinase-like -0.02 0.00003 protein D1044.1 III 5587595 c.279A>C p.Lys93Asn missense WBGene00018964 F56D2.2 hypothetical protein positive regulation of proteasomal -0.05 0.01889 ubiquitin-dependent protein catabolic process; protein polyubiquitination; protein ubiquitination involved in ubiquitin-dependent protein catabolic process III 5600562 c.*41G>A 3 prime UTR WBGene00015468 madf-11 regulation of transcription, DNA- -0.03 0.00619 -0.02 0.85815 templated; transcription, DNA- templated III 5615394 c.377C>T p.Thr126Met missense WBGene00015467 basl-1 BAS-Like cellular amino acid metabolic process -0.05 0.01313 -0.01 0.97869 III 5669799 c.589T>C p.Ser197Pro missense WBGene00003918 par-3 Partitioning defective pro- asymmetric cell division; asymmetric -0.02 0.04591 0.00 0.84176 tein 3 protein localization; cell adhesion; cell differentiation; establishment of cell polarity; establishment of mitotic spindle localization; establishment of mitotic spindle orientation; establishment or maintenance of cell polarity; gastru- lation; gonadal mesoderm development; gonad development; polarity specification of anterior/posterior axis; single fertilization III 5669799 c.718T>C p.Ser240Pro missense WBGene00003918 par-3 Partitioning defective pro- same as above -0.02 0.04591 0.00 0.84176 tein 3 III 5669799 c.826T>C p.Ser276Pro missense WBGene00003918 par-3 Partitioning defective pro- same as above -0.02 0.04591 0.00 0.84176 tein 3 III 5670358 c.1148T>C p.Val383Ala missense WBGene00003918 par-3 Partitioning defective pro- same as above -0.02 0.02139 tein 3 Continued ... Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 III 5670358 c.1385T>C p.Val462Ala missense WBGene00003918 par-3 Partitioning defective pro- same as above -0.02 0.02139 tein 3 III 5670358 c.1277T>C p.Val426Ala missense WBGene00003918 par-3 Partitioning defective pro- same as above -0.02 0.02139 tein 3 III 5712757 c.914A>C p.His305Pro missense WBGene00015143 B0336.3 hypothetical protein mRNA processing -0.06 0.02578 -0.01 0.97903 III 5735467 c.797T>C p.Met266Thr missense WBGene00015085 B0244.10 Putative G-protein coupled -0.03 0.01358 receptor B0244.10 III 5741507 c.*409T>C 3 prime UTR WBGene00015081 B0244.6 0.07 0.00481 0.02 0.91481 III 5762935 c.984-5T>A splice and intron WBGene00002048 ida-1 related to Islet cell Diabetes exocytosis; positive regulation of neuro- -0.03 0.00476 -0.03 0.35251 Autoantigen transmitter secretion III 5767969 c.88G>T p.Val30Phe missense WBGene00015086 B0244.11 ncR -0.04 0.04933 -0.04 0.54094 III 5793063 c.3752C>T p.Ala1251Val missense WBGene00020964 polq-1 D polymerase theta base-excision repair, gap-filling; DNA- 0.07 0.00051 0.01 0.85767 dependent DNA replication III 5924992 c.591-3G>C splice and intron WBGene00001018 dnc-2 Probable dynactin subunit 2 centrosomal and pronuclear rotation; -0.04 0.01315 -0.02 0.82508 chromosome segregation; establishment of mitotic spindle orientation; mitotic spindle organization; nuclear migration; pronuclear migration III 6012810 c.*85A>T 3 prime UTR WBGene00001166 eftu-2 -0.04 0.00917 -0.03 0.76113 III 6025292 c.806A>C p.Glu269Ala missense WBGene00006544 tbx-7 Putative T-box protein 7 transcription, DNA-templated 0.09 0.00003 0.01 0.93608 III 6025292 c.698A>C p.Glu233Ala missense WBGene00006544 tbx-7 Putative T-box protein 7 same as above 0.09 0.00003 0.01 0.93608 III 6040422 c.89A>T p.Lys30Met missense WBGene00018254 F40H6.2 hypothetical protein 0.08 0.00000 0.01 0.92036 III 6242778 c.1200T>A p.Asn400Lys missense WBGene00020440 T12A2.6 hypothetical protein mRNA processing -0.05 0.00938 -0.03 0.80275 III 6264630 c.811A>T p.Ile271Phe missense WBGene00005164 srg-6 Serpentine receptor class sensory perception of chemical stimulus -0.04 0.00300 -0.03 0.57832 gamma-6 III 6293699 c.1483C>A p.Pro495Thr missense WBGene00018563 F47D12.7 Kelch repeat and BTB protein ubiquitination 0.08 0.01012 0.03 0.72754 domain-containing protein F47D12.7 III 6366634 c.*1215G>A 3 prime UTR WBGene00016977 akap-1 regulation of protein kinase A signaling 0.08 0.00004 0.02 0.58202 III 6366634 c.*59C>T 3 prime UTR WBGene00016983 C56G2.15 0.08 0.00004 0.02 0.58202 III 6430861 c.41A>T p.Asn14Ile missense WBGene00015486 C05D11.9 hypothetical protein RNA phosphodiester bond hydrolysis, -0.03 0.00163 endonucleolytic; tRNA 5’-leader removal; tRNA processing III 6451843 c.-39A>G 5 prime UTR WBGene00004781 set-1 Probable histone-lysine N- embryo development ending in birth or 0.08 0.00039 0.01 0.92694 methyltransferase set-1 egg hatching III 6465956 c.548T>C p.Ile183Thr missense and WBGene00006463 nduf-2.2 DH Ubiquinone oxidoreduc- -0.04 0.01696 -0.03 0.76774 splice tase Fe-S protein III 6472579 c.136G>A p.Glu46Lys missense WBGene00007060 wht-6 WHiTe (Drosophila) related ommochrome biosynthetic process 0.08 0.00002 0.01 0.96976 ABC transporter III 6497048 c.824A>T p.Glu275Val missense WBGene00044455 F23F12.13 hypothetical protein 0.07 0.01259 0.02 0.77505 III 6549572 c.869A>T p.Tyr290Phe missense WBGene00015641 C09E7.7 hypothetical protein proteasome-mediated ubiquitin- 0.08 0.00001 0.02 0.64605 dependent protein catabolic process; protein polyubiquitination; protein ubiquitination involved in ubiquitin- dependent protein catabolic process III 6616244 c.592A>G p.Ile198Val missense WBGene00021502 Y40D12A.1 hypothetical protein -0.06 0.00792 0.00 0.99552 III 6621511 c.739G>A p.Val247Ile missense WBGene00015733 C13B9.2 hypothetical protein protein phosphorylation 0.08 0.00006 0.02 0.82135 III 6623029 c.1468A>G p.Lys490Glu missense WBGene00015734 copd-1 Probable coatomer subunit protein transport; retrograde vesicle- -0.04 0.02667 -0.03 0.78509 delta mediated transport, Golgi to ER III 6624421 c.457A>G p.Ile153Val missense WBGene00015734 copd-1 Probable coatomer subunit same as above -0.03 0.04789 0.00 0.99705 delta III 6723870 c.377T>C p.Leu126Pro missense WBGene00018131 F37A4.1 hypothetical protein -0.02 0.00121 Continued ... Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 III 6724182 c.39A>G p.Ter13Trpext*? stop lost WBGene00023031 F37A4.t1 hypothetical protein -0.05 0.00168 -0.01 0.95764 III 6732048 c.-126A>T 5 prime UTR WBGene00003851 odr-4 Odorant response abnormal chemosensory behavior; chemotaxis; ol- -0.04 0.01112 -0.02 0.90106 protein 4 factory behavior; protein localization; protein localization to non-motile cilium; receptor localization to non-motile cilium; response to odorant; sensory perception of smell III 6732554 c.332A>T p.His111Leu missense WBGene00003851 odr-4 Odorant response abnormal same as above 0.08 0.00207 0.02 0.74879 protein 4 III 6732554 c.428A>T p.His143Leu missense WBGene00003851 odr-4 Odorant response abnormal same as above 0.08 0.00207 0.02 0.74879 protein 4 III 6732554 c.422A>T p.His141Leu missense WBGene00003851 odr-4 Odorant response abnormal same as above 0.08 0.00207 0.02 0.74879 protein 4 III 6736305 c.338C>T p.Ala113Val missense WBGene00044453 Y102E9.6 hypothetical protein 0.09 0.00016 0.01 0.92446 III 6736329 c.314C>T p.Ala105Val missense WBGene00044453 Y102E9.6 hypothetical protein -0.04 0.00491 -0.01 0.95874 III 6759457 c.9166G>A p.Asp3056Asn missense WBGene00000998 dig-1 DIsplaced Gonad cell adhesion; gonad development; ner- 0.06 0.01696 0.02 0.75710 vous system development III 6759457 c.8977G>A p.Asp2993Asn missense WBGene00000998 dig-1 DIsplaced Gonad same as above 0.06 0.01696 0.02 0.75710 III 6760181 c.9890G>C p.Gly3297Ala missense WBGene00000998 dig-1 DIsplaced Gonad same as above -0.03 0.00981 0.00 0.97623 III 6760181 c.9701G>C p.Gly3234Ala missense WBGene00000998 dig-1 DIsplaced Gonad same as above -0.03 0.00981 0.00 0.97623 III 6760792 c.10501C>T p.Leu3501Phe missense WBGene00000998 dig-1 DIsplaced Gonad same as above -0.03 0.02334 III 6760792 c.10312C>T p.Leu3438Phe missense WBGene00000998 dig-1 DIsplaced Gonad same as above -0.03 0.02334 III 6788473 c.33758G>A p.Gly11253Glu missense WBGene00000998 dig-1 DIsplaced Gonad same as above -0.04 0.00115 -0.01 0.92735 III 6788473 c.33569G>A p.Gly11190Glu missense WBGene00000998 dig-1 DIsplaced Gonad same as above -0.04 0.00115 -0.01 0.92735 III 6789513 c.34798T>A p.Ser11600Thr missense WBGene00000998 dig-1 DIsplaced Gonad same as above -0.05 0.01516 -0.03 0.90539 III 6789513 c.34609T>A p.Ser11537Thr missense WBGene00000998 dig-1 DIsplaced Gonad same as above -0.05 0.01516 -0.03 0.90539 III 6789561 c.34846A>C p.Lys11616Gln missense WBGene00000998 dig-1 DIsplaced Gonad same as above -0.05 0.00086 -0.02 0.93862 III 6789561 c.34657A>C p.Lys11553Gln missense WBGene00000998 dig-1 DIsplaced Gonad same as above -0.05 0.00086 -0.02 0.93862 III 6790026 c.35311T>C p.Ser11771Pro missense WBGene00000998 dig-1 DIsplaced Gonad same as above -0.04 0.00919 -0.03 0.81376 III 6790026 c.35122T>C p.Ser11708Pro missense WBGene00000998 dig-1 DIsplaced Gonad same as above -0.04 0.00919 -0.03 0.81376 III 6814292 c.2278C>G p.Leu760Val missense WBGene00017904 lim-8 LIM domain family -0.04 0.03175 0.00 0.87220 III 6814292 c.1993C>G p.Leu665Val missense WBGene00017904 lim-8 LIM domain family -0.04 0.03175 0.00 0.87220 III 6815334 c.2988A>C p.Lys996Asn missense WBGene00017904 lim-8 LIM domain family -0.03 0.00066 -0.02 0.66225 III 6815334 c.2703A>C p.Lys901Asn missense WBGene00017904 lim-8 LIM domain family -0.03 0.00066 -0.02 0.66225 III 6815334 c.2295A>C p.Lys765Asn missense WBGene00017904 lim-8 LIM domain family -0.03 0.00066 -0.02 0.66225 III 6847236 c.*453G>A 3 prime UTR WBGene00006498 ten-1 axonal fasciculation; axon guidance; -0.04 0.00081 -0.01 0.94300 basement membrane assembly involved in embryonic body morphogenesis; basement membrane organization; cell migration; defecation; embryo development ending in birth or egg hatching; embryonic body morphogenesis; female gonad development; gamete generation; gonad development; inductive cell migration; male gonad development; motor neuron axon guidance; pharynx development; post-embryonic animal organ morphogenesis; post-embryonic body morphogenesis; sexual reproduction III 6847236 c.*621G>A 3 prime UTR WBGene00006498 ten-1 same as above -0.04 0.00081 -0.01 0.94300 III 6853147 c.*153A>T 3 prime UTR WBGene00006971 zak-1 intracellular signal transduction -0.04 0.01657 0.00 0.99001 Continued ... Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 III 6869753 c.74-3T>C splice and intron WBGene00020064 kbp-1 KNL (kinetochore null) kinetochore assembly -0.05 0.00483 -0.01 0.75164 Binding Protein III 6892108 c.991C>A p.Gln331Lys missense WBGene00019380 K04C2.2 hypothetical protein transcription, DNA-templated -0.06 0.01843 -0.01 0.93295 III 6904320 c.209T>A p.Ile70Lys missense and WBGene00020314 T07E3.3 hypothetical protein -0.05 0.02228 -0.02 0.65416 splice III 6932461 c.341A>G p.Asp114Gly missense WBGene00000276 byn-1 Cell adhesion protein byn-1 cell adhesion -0.03 0.03415 0.00 0.99953 III 6935741 c.*88T>A 3 prime UTR WBGene00000276 byn-1 same as above 0.09 0.00002 0.02 0.80336 III 6963209 c.*4C>A 3 prime UTR WBGene00018996 F57B9.1 pyridoxal phosphate biosynthetic pro- -0.04 0.04290 -0.02 0.88315 cess; pyridoxine biosynthetic process III 6977893 c.*22G>T 3 prime UTR WBGene00017950 F31E3.2 -0.04 0.00112 -0.02 0.84421 III 6982931 c.271A>G p.Ile91Val missense WBGene00017952 F31E3.6 hypothetical protein -0.04 0.00042 -0.02 0.90258 III 7022119 c.185C>T p.Ala62Val missense and WBGene00004341 rfl-1 NEDD8-activating enzyme multicellular organism development; neg- -0.04 0.02882 -0.03 0.71722 splice E1 catalytic subunit ative regulation of DNA damage response, signal transduction by p53 class mediator; protein neddylation III 7057904 c.694T>G p.Tyr232Asp missense WBGene00019810 R01H2.2 hypothetical protein -0.05 0.00006 0.01 0.98715 III 7058065 c.811G>T p.Ala271Ser missense and WBGene00019810 R01H2.2 hypothetical protein 0.08 0.00294 0.02 0.91870 splice III 7059707 c.777+4G>A splice and intron WBGene00019811 egg-2 EGG sterile (unfertilizable) single fertilization -0.04 0.02441 -0.03 0.77516 III 7063104 c.52C>T p.Leu18Phe missense WBGene00019812 R01H2.4 hypothetical protein -0.07 0.00001 0.01 0.98340 III 7063641 c.448G>A p.Ala150Thr missense WBGene00019812 R01H2.4 hypothetical protein -0.03 0.01113 0.00 0.98824 III 7063886 c.251A>C p.Asp84Ala missense WBGene00019812 R01H2.4 hypothetical protein 0.06 0.04577 0.02 0.84225 III 7065530 c.*33G>A 3 prime UTR WBGene00019813 ger-1 ’de novo’ GDP-L-fucose biosynthetic pro- -0.04 0.03191 -0.03 0.81960 cess; GDP-L-fucose biosynthetic process III 7075313 c.411-3T>C splice and intron WBGene00220259 ZK418.13 hypothetical protein -0.05 0.00747 III 7075314 c.411-4C>T splice and intron WBGene00220259 ZK418.13 hypothetical protein -0.04 0.04159 III 7075927 c.157C>A p.Pro53Thr missense WBGene00220259 ZK418.13 hypothetical protein -0.04 0.04666 0.00 0.98577 III 7077411 c.748A>G p.Arg250Gly missense WBGene00022735 ZK418.6 hypothetical protein 0.08 0.00097 0.03 0.63060 III 7091370 c.-22C>T 5 prime UTR WBGene00022732 ZK418.2 hypothetical protein -0.04 0.00152 -0.03 0.72193 III 7092053 c.367A>T p.Thr123Ser missense WBGene00022732 ZK418.2 hypothetical protein -0.03 0.00950 0.00 0.99973 III 7108359 c.38T>C p.Val13Ala missense WBGene00003845 odd-1 Protein odd-skipped-related multicellular organism development; reg- -0.02 0.02804 0.00 0.97039 1 ulation of transcription, DNA-templated; transcription, DNA-templated III 7124735 c.49A>T p.Ser17Cys missense WBGene00015100 B0280.2 hypothetical protein -0.02 0.01618 III 7128918 c.11T>C p.Val4Ala missense WBGene00015107 B0280.13 hypothetical protein -0.05 0.00972 -0.04 0.70777 III 7128930 c.23A>T p.Asp8Val missense WBGene00015107 B0280.13 hypothetical protein -0.02 0.03420 0.00 0.84106 III 7129425 c.227C>A p.Pro76Gln missense WBGene00015107 B0280.13 hypothetical protein -0.05 0.04509 -0.01 0.97567 III 7130567 c.790T>C p.Ser264Pro missense WBGene00015107 B0280.13 hypothetical protein -0.01 0.00080 0.00 0.98291 III 7133793 c.-90C>T 5 prime UTR WBGene00015099 ggtb-1 protein geranylgeranylation -0.02 0.01866 0.00 0.67601 III 7133842 c.-41C>G 5 prime UTR WBGene00015099 ggtb-1 same as above -0.03 0.01818 -0.03 0.72465 III 7148911 c.1867G>A p.Ala623Thr missense WBGene00003858 ogt-1 O-linked Glcc Transferase dauer larval development; energy reserve -0.03 0.01754 -0.05 0.32505 metabolic process; glycogen metabolic process; lipid storage; protein dephosphorylation; protein O-linked glycosylation; reproduction III 7148911 c.1333G>A p.Ala445Thr missense WBGene00003858 ogt-1 O-linked Glcc Transferase same as above -0.03 0.01754 -0.05 0.32505 III 7160725 c.336C>T p.Asn112Asn splice and syn- WBGene00004390 rnp-7 RNP (RRM R binding do- mRNA splicing, via spliceosome -0.03 0.03075 0.00 0.99514 onymous main) containing III 7171770 c.-87T>C 5 prime UTR WBGene00005073 srb-8 sensory perception of chemical stimulus -0.02 0.01106 0.00 0.97193 Continued ... Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 III 7182119 c.-142A>T 5 prime UTR WBGene00018150 epg-4 apoptotic process; macroautophagy; neg- -0.04 0.04493 -0.02 0.48778 ative regulation of autophagosome assembly III 7196481 c.1153G>A p.Asp385Asn missense WBGene00018154 exos-9 EXOSome (multiexonuclease exonucleolytic nuclear-transcribed 0.09 0.00029 0.03 0.61481 complex) component mRNA catabolic process involved in deadenylation-dependent decay; exonucleolytic trimming to generate mature 3’-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA); nuclear mRNA surveillance; nuclear polyadenylation- dependent mRNA catabolic process; nuclear polyadenylation-dependent rRNA catabolic process; nuclear polyadenylation-dependent tRNA catabolic process; nuclear-transcribed mRNA catabolic process, exonucleolytic, 3’-5’; U1 snRNA 3’-end processing; U4 snRNA 3’-end processing; U5 snRNA 3’-end processing III 7198003 c.59T>G p.Ile20Ser missense WBGene00018154 exos-9 EXOSome (multiexonuclease same as above -0.04 0.00157 -0.03 0.74059 complex) component III 7210145 c.38A>G p.Gln13Arg missense WBGene00020107 R151.2 hypothetical protein nucleoside metabolic process; nucleotide 0.07 0.00732 0.02 0.68314 biosynthetic process; ribonucleoside monophosphate biosynthetic process III 7219387 c.905A>G p.Lys302Arg missense WBGene00020106 R151.1 hypothetical protein -0.03 0.03198 0.00 0.98286 III 7219387 c.1100A>G p.Lys367Arg missense WBGene00020106 R151.1 hypothetical protein -0.03 0.03198 0.00 0.98286 III 7219387 c.416A>G p.Lys139Arg missense WBGene00020106 R151.1 hypothetical protein -0.03 0.03198 0.00 0.98286 III 7221757 c.*278G>A 3 prime UTR WBGene00020109 R151.6 endoplasmic reticulum unfolded protein -0.03 0.02709 -0.04 0.56400 response; positive regulation of cell growth; positive regulation of cell proliferation; retrograde protein transport, ER to cytosol; ubiquitin-dependent ERAD pathway III 7229752 c.34A>G p.Ser12Gly missense WBGene00020111 R151.8 hypothetical protein -0.04 0.02962 -0.04 0.62338 III 7276081 c.852T>A p.Phe284Leu missense WBGene00015160 B0361.6 Putative methyltransferase 0.08 0.00246 0.02 0.77220 B0361.6 III 7280987 c.1549G>A p.Asp517Asn missense WBGene00015165 B0361.11 Putative transporter carbohydrate transport -0.03 0.03946 B0361.11 III 7282316 c.691G>A p.Val231Ile missense WBGene00015157 B0361.3 hypothetical protein 0.08 0.00108 0.02 0.78839 III 7294625 c.535C>T p.Leu179Phe missense WBGene00015156 B0361.2 CWF19-like protein 2 ho- 0.08 0.00194 0.02 0.75700 molog III 7311304 c.-24T>C 5 prime UTR WBGene00018948 F56C9.3 -0.04 0.02699 -0.02 0.74350 III 7312244 c.767C>G p.Ala256Gly missense WBGene00018948 F56C9.3 hypothetical protein 0.05 0.00506 0.01 0.87761 III 7312267 c.790A>G p.Ile264Val missense WBGene00018948 F56C9.3 hypothetical protein 0.05 0.02973 0.01 0.86091 III 7332084 c.1399G>A p.Ala467Thr missense WBGene00018953 F56C9.10 hypothetical protein response to starvation; vesicle-mediated 0.03 0.02909 0.01 0.63519 transport III 7332084 c.1408G>A p.Ala470Thr missense WBGene00018953 F56C9.10 hypothetical protein same as above 0.03 0.02909 0.01 0.63519 III 7333376 c.359C>T p.Thr120Ile missense WBGene00018953 F56C9.10 hypothetical protein same as above 0.03 0.00071 0.01 0.87440 III 7333376 c.350C>T p.Thr117Ile missense WBGene00018953 F56C9.10 hypothetical protein same as above 0.03 0.00071 0.01 0.87440 III 7338681 c.*492C>T 3 prime UTR WBGene00001748 gsp-2 cell division; covalent chromatin modifi- -0.03 0.01752 -0.03 0.13172 cation; meiotic cell cycle; multicellular organism development; peptidyl-serine dephosphorylation Continued ... Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 III 7342242 c.1523A>T p.Gln508Leu missense WBGene00002182 kap-1 Kinesin-Associated Protein microtubule-based movement 0.08 0.00607 0.02 0.74119 III 7342242 c.1472A>T p.Gln491Leu missense WBGene00002182 kap-1 Kinesin-Associated Protein same as above 0.08 0.00607 0.02 0.74119 III 7349335 c.*73T>A 3 prime UTR WBGene00017274 F08F8.9 -0.04 0.00395 0.00 0.90424 III 7349335 c.*197T>A 3 prime UTR WBGene00017274 F08F8.9 -0.04 0.00395 0.00 0.90424 III 7353542 c.234-6T>A splice and intron WBGene00017274 F08F8.9 hypothetical protein 0.03 0.00389 0.00 0.96522 III 7355117 c.1223G>A p.Cys408Tyr missense WBGene00017275 F08F8.10 hypothetical protein 0.03 0.00156 0.01 0.89972 III 7355117 c.1214G>A p.Cys405Tyr missense WBGene00017275 F08F8.10 hypothetical protein 0.03 0.00156 0.01 0.89972 III 7356643 c.604G>C p.Ala202Pro missense WBGene00017275 F08F8.10 hypothetical protein 0.01 0.01773 0.01 0.71892 III 7356643 c.595G>C p.Ala199Pro missense WBGene00017275 F08F8.10 hypothetical protein 0.01 0.01773 0.01 0.71892 III 7356850 c.443A>T p.Lys148Ile missense WBGene00017275 F08F8.10 hypothetical protein 0.06 0.04240 0.02 0.82039 III 7366837 c.276C>A p.Phe92Leu missense WBGene00020603 T20B12.5 hypothetical protein -0.03 0.00238 0.00 0.99705 III 7371694 c.2182G>T p.Ala728Ser missense WBGene00003378 mml-1 Myc and Mondo-Like determination of adult lifespan; negative 0.07 0.00293 0.01 0.92159 regulation of transcription from RNA polymerase II promoter; transcription, DNA-templated III 7382217 c.52G>A p.Asp18Asn missense WBGene00020601 T20B12.3 hypothetical protein maturation of SSU-rRNA from tri- 0.06 0.00618 0.02 0.68782 cistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) III 7382542 c.377T>C p.Leu126Ser missense WBGene00020601 T20B12.3 hypothetical protein same as above -0.05 0.00033 -0.02 0.38590 III 7388036 c.230T>C p.Val77Ala missense WBGene00020600 trd-1 Tetratricopeptide repeat- cell differentiation 0.01 0.02000 0.01 0.99687 containing protein trd-1 III 7459261 c.-54T>C 5 prime UTR WBGene00044450 fipr-18 0.08 0.00199 0.02 0.72294 III 7512083 c.1827C>A p.Asn609Lys missense WBGene00015580 cls-1 Protein CLASP-1 astral microtubule organization; cell di- 0.07 0.00014 0.02 0.68010 vision; establishment of mitotic spindle localization; positive regulation of microtubule depolymerization; spindle elongation III 7629685 c.2149A>G p.Thr717Ala missense WBGene00022816 fbn-1 FiBrilliN homolog 0.09 0.00091 0.02 0.91811 III 7629685 c.2155A>G p.Thr719Ala missense WBGene00022816 fbn-1 FiBrilliN homolog 0.09 0.00091 0.02 0.91811 III 7638785 c.7175C>T p.Ser2392Phe missense WBGene00022816 fbn-1 FiBrilliN homolog 0.08 0.00245 0.02 0.75825 III 7638785 c.6881C>T p.Ser2294Phe missense WBGene00022816 fbn-1 FiBrilliN homolog 0.08 0.00245 0.02 0.75825 III 7638785 c.7040C>T p.Ser2347Phe missense WBGene00022816 fbn-1 FiBrilliN homolog 0.08 0.00245 0.02 0.75825 III 7638785 c.7139C>T p.Ser2380Phe missense WBGene00022816 fbn-1 FiBrilliN homolog 0.08 0.00245 0.02 0.75825 III 7638785 c.6899C>T p.Ser2300Phe missense WBGene00022816 fbn-1 FiBrilliN homolog 0.08 0.00245 0.02 0.75825 III 7638785 c.7181C>T p.Ser2394Phe missense WBGene00022816 fbn-1 FiBrilliN homolog 0.08 0.00245 0.02 0.75825 III 7638785 c.6947C>T p.Ser2316Phe missense WBGene00022816 fbn-1 FiBrilliN homolog 0.08 0.00245 0.02 0.75825 III 7638785 c.6806C>T p.Ser2269Phe missense WBGene00022816 fbn-1 FiBrilliN homolog 0.08 0.00245 0.02 0.75825 III 7638785 c.7106C>T p.Ser2369Phe missense WBGene00022816 fbn-1 FiBrilliN homolog 0.08 0.00245 0.02 0.75825 III 7666164 c.2617G>C p.Ala873Pro missense WBGene00015988 C18H2.1 hypothetical protein -0.06 0.00000 0.00 0.81596 III 7746657 c.5521G>A p.Val1841Met missense WBGene00000395 cdh-3 Cadherin-3 basement membrane disassembly; ho- 0.08 0.00098 0.02 0.64500 mophilic cell adhesion via plasma membrane adhesion molecules; morphogenesis of embryonic epithelium; nematode male tail tip morphogenesis III 7842438 c.*356T>A 3 prime UTR WBGene00022786 ZK652.8 -0.04 0.01652 -0.01 0.54772 III 7855560 c.358G>T p.Ala120Ser missense WBGene00004449 rpl-35 60S ribosomal protein L35 maturation of LSU-rRNA from tri- 0.08 0.00036 0.01 0.92421 cistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA); translation III 7903733 c.1712A>T p.Lys571Met missense WBGene00022797 best-24 Bestrophin homolog 24 0.08 0.00045 0.02 0.82542 III 7921084 c.*84T>A splice WBGene00044634 C29E4.14 Putative protein tag-250 0.08 0.00015 0.02 0.69418 III 7921084 c.*84T>A 3 prime UTR WBGene00044634 C29E4.14 Putative protein tag-250 0.08 0.00015 0.02 0.69418 Continued ... Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 III 7927859 c.153A>G p.Leu51Leu splice and syn- WBGene00043051 C29E4.13 hypothetical protein -0.03 0.00008 0.00 0.99944 onymous III 7927859 c.480A>G p.Leu160Leu splice and syn- WBGene00043051 C29E4.13 hypothetical protein -0.03 0.00008 0.00 0.99944 onymous III 7927859 c.420A>G p.Leu140Leu splice and syn- WBGene00043051 C29E4.13 hypothetical protein -0.03 0.00008 0.00 0.99944 onymous III 7928215 c.-77G>A 5 prime UTR WBGene00043051 C29E4.13 hypothetical protein -0.03 0.00577 III 7928215 c.-81G>A 5 prime UTR WBGene00043051 C29E4.13 hypothetical protein -0.03 0.00577 III 7928215 c.187G>A p.Val63Ile missense WBGene00043051 C29E4.13 hypothetical protein -0.03 0.00577 III 7928215 c.247G>A p.Val83Ile missense WBGene00043051 C29E4.13 hypothetical protein -0.03 0.00577 III 7931505 c.2170G>A p.Gly724Arg missense WBGene00003801 npp-15 Nuclear pore complex pro- chromatin organization; mRNA trans- -0.02 0.04813 0.00 0.88975 tein 15 port; multicellular organism development; nuclear pore distribution; protein import into nucleus; regulation of transcription, DNA-templated; RNA export from nucleus; transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery III 7932306 c.2920C>T p.Pro974Ser missense WBGene00003801 npp-15 Nuclear pore complex pro- same as above 0.08 0.00010 0.00 0.99565 tein 15 III 7942568 c.772A>G p.Asn258Asp missense WBGene00016202 kle-2 Kleisin, abnormal closure, cell division; chromosome condensation; 0.07 0.00062 0.01 0.91632 protein 2 meiotic cell cycle; mitotic sister chromatid segregation III 7942806 c.961A>T p.Thr321Ser missense WBGene00016202 kle-2 Kleisin, abnormal closure, same as above 0.08 0.00099 0.02 0.77018 protein 2 III 7950556 c.730A>T p.Lys244* stop gained WBGene00002879 let-754 Adenylate kinase ADP biosynthetic process; negative regu- 0.07 0.00252 0.02 0.86655 lation of protein kinase C signaling; regulation of establishment of cell polarity III 7977209 c.*251C>T 3 prime UTR WBGene00000041 aco-2 tricarboxylic acid cycle -0.04 0.04995 -0.01 0.50204 III 7986162 c.*130T>A 3 prime UTR WBGene00000542 clp-1 positive regulation of necrotic cell death 0.08 0.00068 0.01 0.95880 III 7986192 c.*160C>T 3 prime UTR WBGene00000542 clp-1 same as above 0.07 0.00305 0.02 0.79941 III 7986192 c.*100-8C>T splice and intron WBGene00000542 clp-1 same as above 0.07 0.00305 0.02 0.79941 III 7987366 c.148A>G p.Ile50Val missense WBGene00015557 C06G4.1 KH domain-containing pro- 0.09 0.00008 0.01 0.98372 tein C06G4.1 III 7988714 c.1399G>A p.Asp467Asn missense WBGene00015557 C06G4.1 KH domain-containing pro- -0.04 0.01185 -0.01 0.22465 tein C06G4.1 III 7989221 c.1718T>A p.Ile573Asn missense WBGene00015557 C06G4.1 KH domain-containing pro- 0.07 0.00006 0.02 0.81428 tein C06G4.1 III 8016693 c.*429G>C 3 prime UTR WBGene00003021 lin-36 embryonic digestive tract morphogenesis 0.08 0.00000 0.01 0.98561 III 8018436 c.1904C>A p.Thr635Lys missense WBGene00003021 lin-36 Protein lin-36 same as above -0.04 0.00466 -0.03 0.61487 III 8022700 c.238A>G p.Thr80Ala missense WBGene00018407 F44B9.2 hypothetical protein 0.06 0.02501 0.02 0.90855 III 8029606 c.44T>G p.Phe15Cys missense WBGene00018409 F44B9.8 Probable replication factor C DNA-dependent DNA replication; DNA 0.06 0.01912 0.01 0.95426 subunit 5 repair III 8044874 c.*94A>T 3 prime UTR WBGene00019680 K12H4.5 0.09 0.00011 0.00 0.99776 III 8046148 c.104C>T p.Ser35Phe missense WBGene00019678 K12H4.3 Ribosome biogenesis protein ribosomal large subunit assembly 0.07 0.00009 0.01 0.96469 BRX1 homolog III 8090791 c.1366-3C>T splice and intron WBGene00019457 vms-1 Protein vms-1 mitochondria-associated ubiquitin- 0.10 0.00001 0.00 0.99585 dependent protein catabolic process; nuclear protein quality control by the ubiquitin-proteasome system; ubiquitin- dependent ERAD pathway III 8091228 c.1753C>T p.His585Tyr missense WBGene00019457 vms-1 Protein vms-1 same as above 0.06 0.00123 0.01 0.97452 Continued ... Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 III 8114575 c.3709C>G p.Pro1237Ala missense WBGene00001565 gei-8 Nuclear receptor corepressor regulation of transcription from RNA 0.09 0.00000 0.02 0.61224 1 polymerase II promoter III 8134448 c.407C>T p.Ser136Leu missense WBGene00015752 C14B9.2 Probable protein disulfide- cell redox homeostasis; endoplasmic 0.07 0.00014 0.01 0.96476 isomerase A4 reticulum unfolded protein response; protein folding III 8177142 c.*227G>A 3 prime UTR WBGene00016804 C50C3.12 -0.05 0.02431 -0.00 0.97476 III 8190977 c.173T>C p.Ile58Thr missense WBGene00220258 C50C3.19 hypothetical protein 0.07 0.00081 0.01 0.92070 III 8193774 c.*162C>T 3 prime UTR WBGene00016799 C50C3.1 0.07 0.00425 0.02 0.91687 III 8193775 c.*163C>T 3 prime UTR WBGene00016799 C50C3.1 0.07 0.00874 0.02 0.89911 III 8201163 c.-58G>T 5 prime UTR WBGene00006772 unc-36 positive regulation of locomotion; protein 0.07 0.00720 0.02 0.93341 localization to synapse; regulation of calcium ion transport III 8223004 c.574+1G>A splice donor and WBGene00016239 C30A5.4 hypothetical protein 0.04 0.00916 -0.01 0.90157 intron III 8251820 c.1041C>A p.Asp347Glu missense WBGene00002231 knl-1 Kinetochore null protein 1 astral microtubule organization; cell divi- 0.08 0.00000 0.01 0.94989 sion; chromosome segregation; establishment of protein localization; kinetochore assembly; meiotic chromosome separation; meiotic metaphase I plate congres- sion; meiotic spindle organization; mitotic spindle assembly checkpoint; positive regulation of protein localization to kinetochore; protein localization to kinetochore; protein localization to kinetochore involved in kinetochore assembly III 8252594 c.1771G>A p.Glu591Lys missense WBGene00002231 knl-1 Kinetochore null protein 1 same as above 0.08 0.00001 0.00 0.99973 III 8252627 c.1804C>G p.Gln602Glu missense WBGene00002231 knl-1 Kinetochore null protein 1 same as above -0.04 0.03534 -0.02 0.43182 III 8402533 c.743C>T p.Ala248Val missense WBGene00022702 cutc-1 Copper homeostasis protein copper ion homeostasis; ion transmem- -0.03 0.00862 0.00 0.98803 cutC homolog brane transport; multicellular organism growth; multicellular organism reproduction; oviposition; response to copper ion; vulval development III 8408097 c.907C>A p.Leu303Ile missense WBGene00022697 cyy-1 Cyclin-Y cell cycle; cell division; negative reg- -0.05 0.03635 -0.01 0.57232 ulation of synapse assembly; regulation of cyclin-dependent protein serine/threonine kinase activity; regulation of neuron remodeling; regulation of terminal button organization; transport III 8408097 c.901C>A p.Leu301Ile missense WBGene00022697 cyy-1 Cyclin-Y same as above -0.05 0.03635 -0.01 0.57232 III 8428350 c.*85T>C 3 prime UTR WBGene00000414 cec-1 -0.04 0.00124 III 8430079 c.598G>A p.Val200Met missense WBGene00022862 ZK1236.1 Translation factor GUF1 ho- translation 0.07 0.00908 0.02 0.87912 molog, mitochondrial III 8432896 c.348A>C p.Glu116Asp missense WBGene00044588 ZK1236.9 hypothetical protein -0.03 0.00656 -0.03 0.71519 III 8432896 c.411A>C p.Glu137Asp missense WBGene00044588 ZK1236.9 hypothetical protein -0.03 0.00656 -0.03 0.71519 III 8449028 c.*19T>A 3 prime UTR WBGene00004460 rpn-3 regulation of protein catabolic process; -0.03 0.04916 -0.03 0.06234 ubiquitin-dependent protein catabolic process III 8450127 c.319C>T p.Pro107Ser missense WBGene00016249 mrpl-32 Probable 39S ribosomal pro- translation -0.05 0.00000 -0.02 0.06588 tein L32, mitochondrial III 8450476 c.*70T>A 3 prime UTR WBGene00016249 mrpl-32 translation 0.08 0.00014 0.01 0.92360 III 8477639 c.2717A>C p.Asp906Ala missense WBGene00018369 mig-39 Zinc finger BED domain- multicellular organism development; reg- -0.04 0.00790 -0.02 0.86432 containing protein 39 ulation of transcription from RNA polymerase II promoter III 8518434 c.*160C>T 3 prime UTR WBGene00015418 pac-1 signal transduction -0.05 0.03465 -0.01 0.50789 Continued ... Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 III 8518434 c.*29C>T 3 prime UTR WBGene00015418 pac-1 same as above -0.05 0.03465 -0.01 0.50789 III 8525746 c.299T>C p.Ile100Thr missense WBGene00022505 ZC21.3 hypothetical protein -0.03 0.04497 -0.03 0.71021 III 8528069 c.325G>A p.Val109Ile missense WBGene00022505 ZC21.3 hypothetical protein -0.04 0.00568 -0.02 0.87680 III 8528069 c.475G>A p.Val159Ile missense WBGene00022505 ZC21.3 hypothetical protein -0.04 0.00568 -0.02 0.87680 III 8528069 c.568G>A p.Val190Ile missense WBGene00022505 ZC21.3 hypothetical protein -0.04 0.00568 -0.02 0.87680 III 8528069 c.784G>A p.Val262Ile missense WBGene00022505 ZC21.3 hypothetical protein -0.04 0.00568 -0.02 0.87680 III 8536762 c.158G>T p.Ser53Ile missense WBGene00006614 trp-1 TRP (transient receptor po- manganese ion transport; regulation of -0.04 0.00248 -0.03 0.47734 tential) channel family cytosolic calcium ion concentration; single fertilization III 8542215 c.2840A>T p.Tyr947Phe missense WBGene00006614 trp-1 TRP (transient receptor po- same as above -0.04 0.00025 -0.02 0.73053 tential) channel family III 8542215 c.2780A>T p.Tyr927Phe missense WBGene00006614 trp-1 TRP (transient receptor po- same as above -0.04 0.00025 -0.02 0.73053 tential) channel family III 8542737 c.*86A>C 3 prime UTR WBGene00006614 trp-1 same as above -0.05 0.00005 -0.01 0.32313 III 8552616 c.31A>G p.Ile11Val missense WBGene00043097 C02D5.4 hypothetical protein glutathione metabolic process; toxin -0.04 0.01583 -0.03 0.80963 catabolic process III 8555710 c.*29T>G 3 prime UTR WBGene00015337 gsto-2 glutathione metabolic process; toxin -0.04 0.02543 -0.04 0.67736 catabolic process III 8558778 c.769G>A p.Ala257Thr missense WBGene00015336 C02D5.2 GILT-like protein C02D5.2 -0.04 0.00145 -0.02 0.68787 III 8558778 c.589G>A p.Ala197Thr missense WBGene00015336 C02D5.2 GILT-like protein C02D5.2 -0.04 0.00145 -0.02 0.68787 III 8561483 c.247A>T p.Thr83Ser missense WBGene00015335 acdh-6 Probable acyl-CoA dehydro- leucine catabolic process -0.03 0.01976 -0.03 0.74075 genase 6 III 8561600 c.364C>G p.Gln122Glu missense WBGene00015335 acdh-6 Probable acyl-CoA dehydro- same as above -0.04 0.00754 -0.04 0.44920 genase 6 III 8583538 c.*237C>T 3 prime UTR WBGene00015519 doxa-1 protein transport -0.03 0.00425 -0.04 0.25768 III 8590978 c.5T>A p.Ile2Asn missense WBGene00015521 fipr-16 Fungus-induced-related pro- -0.05 0.00003 -0.00 0.99974 tein 16 III 8591928 c.745A>C p.Ile249Leu missense WBGene00015522 C06E1.7 Putative glycosyltransferase carbohydrate metabolic process; macro- -0.04 0.00087 -0.03 0.66020 C06E1.7 molecule glycosylation III 8607839 c.871C>A p.Leu291Ile missense WBGene00015524 C06E1.9 hypothetical protein box C/D snoRNA 3’-end processing; 0.06 0.00203 0.02 0.65642 histone glutamine methylation; rRNA methylation III 8608646 c.590G>A p.Ser197Asn missense WBGene00015524 C06E1.9 hypothetical protein same as above -0.04 0.00127 -0.03 0.79484 III 8609463 c.310A>G p.Ile104Val missense WBGene00015524 C06E1.9 hypothetical protein same as above -0.05 0.00008 -0.01 0.78699 III 8617138 c.859A>T p.Ser287Cys missense WBGene00015747 C13G5.2 hypothetical protein -0.04 0.02010 -0.03 0.72010 III 8617730 c.316G>T p.Gly106Cys missense WBGene00015747 C13G5.2 hypothetical protein -0.05 0.03306 -0.01 0.65224 III 8626441 c.1755G>T p.Met585Ile missense WBGene00017696 polk-1 D polymerase kappa DNA replication; embryo development -0.04 0.01354 -0.04 0.38290 ending in birth or egg hatching; error- prone translesion synthesis; reproduction; translesion synthesis III 8626441 c.1356G>T p.Met452Ile missense WBGene00017696 polk-1 D polymerase kappa same as above -0.04 0.01354 -0.04 0.38290 III 8629725 c.718G>T p.Asp240Tyr missense WBGene00001688 gpr-1 G-protein regulator 1 cell cycle; cell division -0.04 0.00116 0.00 0.76921 III 8630154 c.1097T>C p.Val366Ala missense WBGene00001688 gpr-1 G-protein regulator 1 same as above -0.04 0.00481 0.00 0.99547 III 8630739 c.*52T>A 3 prime UTR WBGene00001688 gpr-1 same as above -0.04 0.00181 -0.01 0.93419 III 8646212 c.46G>A p.Gly16Ser missense WBGene00022999 F22B7.t2 -0.05 0.00007 -0.00 0.69816 III 8652622 c.*167C>G 3 prime UTR WBGene00017698 F22B7.9 0.09 0.00000 0.01 0.91798 III 8665792 c.349A>T p.Asn117Tyr missense WBGene00017692 F22B7.1 C-mannosyltransferase dpy- -0.04 0.01045 -0.01 0.30336 19 III 8665793 c.350A>G p.Asn117Ser missense WBGene00017692 F22B7.1 C-mannosyltransferase dpy- -0.04 0.00053 19 III 8685893 c.508G>A p.Val170Ile missense WBGene00015124 anmt-1 Nicotinamide N- -0.04 0.00013 -0.03 0.72551 methyltransferase Continued ... Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 III 8686185 c.*459T>A 3 prime UTR WBGene00015125 B0303.3 Nicotinamide N- fatty acid beta-oxidation -0.04 0.00140 -0.03 0.76516 methyltransferase III 8686407 c.*81C>A 3 prime UTR WBGene00015124 anmt-1 -0.04 0.00058 -0.03 0.43272 III 8686407 c.*237G>T 3 prime UTR WBGene00015125 B0303.3 same as above -0.04 0.00058 -0.03 0.43272 III 8687988 c.172+4T>G splice and intron WBGene00015125 B0303.3 hypothetical protein same as above -0.04 0.00173 -0.03 0.63366 III 8691433 c.854C>A p.Thr285Asn missense WBGene00015126 B0303.4 hypothetical protein -0.04 0.00009 -0.04 0.17212 III 8691504 c.925C>T p.Pro309Ser missense WBGene00015126 B0303.4 hypothetical protein -0.04 0.00088 -0.02 0.90070 III 8699314 c.*120G>T 3 prime UTR WBGene00015128 B0303.7 endocytosis -0.04 0.00065 -0.03 0.48271 III 8699535 c.*31A>C 3 prime UTR WBGene00015129 sdz-1 mesendoderm development; multicellular -0.05 0.00000 -0.05 0.09684 organism development III 8702110 c.887T>A p.Phe296Tyr missense WBGene00015130 vps-33.1 Vacuolar protein sorting- protein transport; vesicle docking in- -0.04 0.00053 -0.04 0.28150 associated protein 33A volved in exocytosis III 8702541 c.1226C>T p.Ala409Val missense WBGene00015130 vps-33.1 Vacuolar protein sorting- same as above -0.03 0.03307 -0.05 0.15758 associated protein 33A III 8705566 c.383A>T p.Tyr128Phe missense WBGene00044678 B0303.16 Uncharacterized amino-acid -0.04 0.00008 -0.02 0.08541 permease B0303.11 III 8707258 c.1596+3A>T splice and intron WBGene00015131 B0303.11 Uncharacterized amino-acid ion transport; transmembrane transport -0.05 0.00432 -0.02 0.48040 permease B0303.11 III 8709626 c.35C>A p.Pro12Gln missense WBGene00015131 B0303.11 Uncharacterized amino-acid same as above -0.05 0.00343 -0.03 0.27025 permease B0303.11 III 8715881 c.130T>A p.Phe44Ile missense WBGene00015132 B0303.14 hypothetical protein -0.05 0.00022 -0.04 0.32917 III 8720701 c.450A>T p.Glu150Asp missense WBGene00022717 hipr-1 Huntington interacting pro- defecation; developmental process; endo- -0.05 0.00006 -0.01 0.32816 tein related 1 cytosis; neurotransmitter secretion; protein localization; ultradian rhythm III 8725065 c.*54T>A 3 prime UTR WBGene00022717 hipr-1 same as above -0.04 0.02397 -0.04 0.34282 III 8725065 c.*119T>A 3 prime UTR WBGene00022717 hipr-1 same as above -0.04 0.02397 -0.04 0.34282 III 8725354 c.*239G>A 3 prime UTR WBGene00022718 ZK370.4 developmental process; lipid catabolic -0.04 0.00202 -0.03 0.00378 process; phosphatidylcholine metabolic process III 8737944 c.*99G>A 3 prime UTR WBGene00022719 pdhk-2 glucose metabolic process -0.06 0.00000 -0.00 0.30049 III 8746993 c.765+8A>T splice and intron WBGene00022721 ugtp-1 UDP-galactose translocator -0.04 0.01249 -0.04 0.31329 1 III 8747282 c.484T>C p.Phe162Leu missense WBGene00022721 ugtp-1 UDP-galactose translocator -0.03 0.03427 -0.04 0.26588 1 III 8752008 c.497G>A p.Arg166Lys missense WBGene00004856 sma-2 Dwarfin sma-2 nematode male tail tip morphogenesis; -0.04 0.02654 -0.04 0.38739 pharynx development; positive regulation of cell growth; positive regulation of multicellular organism growth; post- embryonic development; regulation of mesodermal cell fate specification; transcription, DNA-templated; transforming growth factor beta receptor signaling pathway III 8752184 c.*116T>A 3 prime UTR WBGene00022722 ZK370.8 Dwarfin sma-2 0.10 0.00000 0.01 0.97878 III 8753791 c.768G>T p.Leu256Phe missense WBGene00022722 ZK370.8 Dwarfin sma-2 -0.05 0.00350 -0.01 0.60573 III 8769023 c.383A>G p.Gln128Arg missense WBGene00019800 mtss-1 Single-stranded D-binding DNA replication -0.06 0.00054 -0.01 0.55015 protein, mitochondrial III 8773662 c.518A>T p.Tyr173Phe missense WBGene00019301 K02D10.1 Putative NipSnap protein -0.04 0.02623 -0.06 0.10818 K02D10.1 III 8774246 c.*94A>C 3 prime UTR WBGene00019301 K02D10.1 Putative NipSnap protein -0.04 0.00003 -0.03 0.26682 K02D10.1 III 8774991 c.277T>A p.Leu93Ile missense WBGene00019301 K02D10.1 Putative NipSnap protein 0.04 0.00081 0.01 0.63046 K02D10.1 Continued ... Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 III 8774991 c.988T>A p.Leu330Ile missense WBGene00019301 K02D10.1 Putative NipSnap protein 0.04 0.00081 0.01 0.63046 K02D10.1 III 8778095 c.*506G>C 3 prime UTR WBGene00019304 K02D10.4 -0.05 0.00395 -0.02 0.94352 III 8778247 c.*354G>T 3 prime UTR WBGene00019304 K02D10.4 -0.05 0.03142 -0.03 0.87788 III 8779946 c.67C>T p.His23Tyr missense WBGene00019304 K02D10.4 hypothetical protein -0.03 0.01248 -0.03 0.48117 III 8786393 c.-15T>C 5 prime UTR WBGene00219329 K02D10.8 -0.05 0.02263 -0.06 0.32360 III 8787573 c.1565G>T p.Gly522Val missense WBGene00018833 ztf-1 Zinc finger transcription fac- -0.04 0.00073 -0.01 0.97937 tor family protein 1 III 8787573 c.557G>T p.Gly186Val missense WBGene00018833 ztf-1 Zinc finger transcription fac- -0.04 0.00073 -0.01 0.97937 tor family protein 1 III 8789090 c.217A>G p.Lys73Glu missense WBGene00018833 ztf-1 Zinc finger transcription fac- -0.03 0.00783 -0.04 0.18162 tor family protein 1 III 8789090 c.1225A>G p.Lys409Glu missense WBGene00018833 ztf-1 Zinc finger transcription fac- -0.03 0.00783 -0.04 0.18162 tor family protein 1 III 8792329 c.10G>A p.Ala4Thr missense WBGene00018833 ztf-1 Zinc finger transcription fac- -0.05 0.00105 tor family protein 1 III 8792331 c.8A>G p.Glu3Gly missense WBGene00018833 ztf-1 Zinc finger transcription fac- -0.05 0.00218 tor family protein 1 III 8793280 c.343A>G p.Thr115Ala missense WBGene00006975 zfp-1 Zinc Finger Protein RNA interference -0.05 0.00791 -0.03 0.86534 III 8793338 c.353-1G>A splice acceptor WBGene00006975 zfp-1 Zinc Finger Protein same as above -0.05 0.01842 -0.03 0.78144 and intron III 8798541 c.-14G>T 5 prime UTR WBGene00006975 zfp-1 Zinc Finger Protein same as above -0.04 0.00000 -0.03 0.40896 III 8804664 c.2089C>T p.Pro697Ser missense WBGene00006975 zfp-1 Zinc Finger Protein same as above 0.03 0.00208 0.01 0.77065 III 8804664 c.1393C>T p.Pro465Ser missense WBGene00006975 zfp-1 Zinc Finger Protein same as above 0.03 0.00208 0.01 0.77065 III 8806268 c.*643A>C 3 prime UTR WBGene00006975 zfp-1 Zinc Finger Protein same as above -0.05 0.00010 -0.04 0.21787 III 8806268 c.*96T>G 3 prime UTR WBGene00018835 F54F2.7 Zinc Finger Protein -0.05 0.00010 -0.04 0.21787 III 8807218 c.123+6A>T splice and intron WBGene00018835 F54F2.7 hypothetical protein 0.08 0.00008 0.02 0.85549 III 8807597 c.*234G>A 3 prime UTR WBGene00004201 prx-19 nematode larval development; peroxi- -0.04 0.00154 -0.04 0.34461 some organization III 8808084 c.596C>T p.Thr199Ile missense WBGene00004201 prx-19 Putative peroxisomal bio- same as above -0.05 0.00022 -0.04 0.29696 genesis factor 19 III 8819406 c.412G>A p.Val138Met missense and WBGene00003929 pat-2 Integrin alpha pat-2 cell adhesion; integrin-mediated signal- -0.05 0.00096 -0.03 0.63879 splice ing pathway; negative regulation of epi- dermal growth factor receptor signaling pathway; positive regulation of engulf- ment of apoptotic cell; positive regulation of locomotion; regulation of vulval development; vulval cell fate specification III 8832814 c.3829A>C p.Ile1277Leu missense WBGene00018418 F44E2.4 hypothetical protein 0.08 0.00000 0.02 0.63175 III 8837014 c.698A>T p.His233Leu missense WBGene00018418 F44E2.4 hypothetical protein -0.04 0.00101 -0.01 0.05730 III 8850148 c.329A>C p.Asn110Thr missense WBGene00018422 F44E2.9 hypothetical protein 0.07 0.00001 0.03 0.37597 III 8882971 c.*43A>G splice WBGene00014021 svop-1 0.07 0.00006 0.04 0.25967 III 8882971 c.*43A>G 3 prime UTR WBGene00014021 svop-1 0.07 0.00006 0.04 0.25967 III 8889098 c.-55C>T 5 prime UTR WBGene00014031 ZK637.14 hypothetical protein proteasome-mediated ubiquitin- -0.05 0.01199 -0.03 0.36443 dependent protein catabolic process; protein polyubiquitination; protein ubiquitination involved in ubiquitin- dependent protein catabolic process III 8891742 c.690+2T>C splice donor and WBGene00014023 lnkn-1 Protein linkin cell adhesion 0.04 0.00096 0.02 0.31970 intron Continued ... Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 III 8903582 c.346G>A p.Ala116Thr missense WBGene00002998 lin-9 Protein lin-9 cell cycle; embryo development ending 0.04 0.00000 0.01 0.18289 in birth or egg hatching; gonad development; male gonad development; negative regulation of vulval development; nematode male tail tip morphogenesis; regulation of transcription, DNA- templated; reproduction; transcription, DNA-templated III 8903582 c.340G>A p.Ala114Thr missense WBGene00002998 lin-9 Protein lin-9 same as above 0.04 0.00000 0.01 0.18289 III 8913237 c.581A>G p.Lys194Arg missense WBGene00014027 tpk-1 Thiamin pyrophosphokinase thiamine diphosphate biosynthetic pro- -0.04 0.00199 -0.02 0.02734 1 cess; thiamine metabolic process III 8913237 c.536A>G p.Lys179Arg missense WBGene00014027 tpk-1 Thiamin pyrophosphokinase same as above -0.04 0.00199 -0.02 0.02734 1 III 8922750 c.-84G>A 5 prime UTR WBGene00014029 ZK637.12 Globin-like protein 0.09 0.00000 0.02 0.56618 III 8932333 c.-3+4A>C splice and intron WBGene00014033 arrd-15 ARRestin Domain protein -0.05 0.00120 -0.01 0.54687 III 8932418 c.20G>A p.Gly7Asp missense WBGene00014033 arrd-15 ARRestin Domain protein -0.06 0.00005 -0.01 0.19839 III 8960666 c.28A>G p.Ile10Val missense WBGene00014037 ZK643.6 hypothetical protein -0.04 0.00721 III 8967624 c.92A>T p.Asn31Ile missense WBGene00011142 R08D7.1 BUD13 homolog -0.06 0.00000 0.00 0.70740 III 8968512 c.441A>C p.Glu147Asp missense WBGene00011143 R08D7.2 Putative R polymerase II dephosphorylation of RNA polymerase II -0.06 0.00000 -0.00 0.17139 subunit B1 CTD phos- C-terminal domain phatase R08D7.2 III 8975533 c.*125G>A 3 prime UTR WBGene00011146 pde-2 cGMP catabolic process; chemosensory -0.05 0.00624 -0.02 0.15495 behavior; chemotaxis; chemotropism; determination of adult lifespan; negative regulation of cGMP biosynthetic process; negative regulation of cyclic nucleotide- gated ion channel activity; phototrans- duction; positive regulation of cellular response to alcohol; positive regulation of cGMP-mediated signaling; positive regulation of chemotaxis; positive regulation of gene expression; positive regulation of multicellular organism growth; positive regulation of oviposition; regulation of multicellular organism growth; regulation of oviposition; response to alka- line pH; response to hydrogen peroxide; response to odorant; response to oxygen levels III 8996781 c.-1T>G 5 prime UTR WBGene00010307 skat-1 amino acid transmembrane transport 0.04 0.00342 0.01 0.92421 III 8996781 c.-1T>G 5 prime UTR WBGene00010307 skat-1 same as above 0.04 0.00342 0.01 0.92421 premature start codon gain III 9004381 c.1316A>T p.Gln439Leu missense WBGene00006977 zif-1 Zinc finger-interacting factor embryo development ending in birth 0.08 0.00000 0.03 0.28087 1 or egg hatching; protein ubiquitination; ubiquitin-dependent protein catabolic process III 9004700 c.*165A>C 3 prime UTR WBGene00006977 zif-1 same as above -0.05 0.00000 III 9020495 c.2399A>G p.His800Arg missense WBGene00010314 F59B2.12 hypothetical protein -0.05 0.00686 -0.05 0.51027 III 9021973 c.305G>T p.Arg102Leu missense WBGene00050931 F59B2.14 hypothetical protein -0.05 0.01283 -0.06 0.32360 III 9040493 c.686+8T>A splice and intron WBGene00003518 nac-2 DC (Na+-coupled dicar- citrate transport; determination of adult 0.04 0.02711 0.01 0.81084 boxylate transporter) family lifespan; lipid metabolic process; positive regulation of multicellular organism growth; sodium ion transport; succinate transport Continued ... Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 III 9040493 c.788+8T>A splice and intron WBGene00003518 nac-2 DC (Na+-coupled dicar- same as above 0.04 0.02711 0.01 0.81084 boxylate transporter) family III 9046139 c.*216T>C 3 prime UTR WBGene00011299 ikke-1 peptidyl-serine phosphorylation; -0.02 0.03777 peptidyl-threonine phosphorylation III 9046139 c.*425T>C 3 prime UTR WBGene00011299 ikke-1 same as above -0.02 0.03777 III 9046139 c.*346T>C 3 prime UTR WBGene00011299 ikke-1 same as above -0.02 0.03777 III 9047414 c.2426A>T p.Lys809Ile missense WBGene00011299 ikke-1 Inhibitor of NFKappaB Ki- same as above 0.04 0.00627 0.01 0.82161 nase Epsilon subunit homolog III 9053699 c.86C>A p.Pro29Gln missense WBGene00011300 R107.5 hypothetical protein 0.08 0.00045 0.03 0.57832 III 9058511 c.2957A>G p.Lys986Arg missense WBGene00000549 cls-2 CLASP family of astral microtubule organization; attach- -0.06 0.00000 0.00 0.99695 microtubule-binding pro- ment of spindle microtubules to kine- teins tochore involved in meiotic chromosome segregation; cytoplasmic streaming; establishment of mitotic spindle localization; meiotic chromosome separation; meiotic spindle midzone assembly; meiotic spindle organization; microtubule polymerization; mitotic cytokinesis; mitotic sister chromatid separation; mitotic spindle midzone assembly; sister chromatid biorientation III 9058511 c.2948A>G p.Lys983Arg missense WBGene00000549 cls-2 CLASP family of same as above -0.06 0.00000 0.00 0.99695 microtubule-binding pro- teins III 9060256 c.*146G>T 3 prime UTR WBGene00003001 lin-12 cell-cell signaling involved in cell fate 0.09 0.00011 0.01 0.95416 commitment; cell fate specification; dauer exit; nematode larval development; Notch signaling pathway; oviposition; positive regulation of mesodermal cell fate specification; regulation of mesodermal cell fate specification; vulval development III 9075998 c.565A>G p.Thr189Ala missense WBGene00008513 F02A9.1 hypothetical protein -0.05 0.00019 -0.01 0.28432 III 9097961 c.2618A>C p.Glu873Ala missense WBGene00001609 glp-1 Protein glp-1 cell fate specification; embryonic pat- 0.05 0.00311 0.01 0.77331 tern specification; maintenance of dauer; negative regulation of stem cell differentiation; nematode larval development; Notch signaling pathway; pharyngeal muscle development; positive regulation of stem cell proliferation; positive regulation of transcription from RNA polymerase II promoter; regulation of gene expression III 9099346 c.*14T>C 3 prime UTR WBGene00001609 glp-1 same as above 0.09 0.00000 0.02 0.68884 III 9126629 c.281A>G p.Tyr94Cys missense WBGene00013985 sec-16 Protein transport protein COPII vesicle coating; ER to Golgi 0.04 0.00580 0.00 0.99973 Sec16 vesicle-mediated transport; protein localization to endoplasmic reticulum exit site III 9126629 c.305A>G p.Tyr102Cys missense WBGene00013985 sec-16 Protein transport protein same as above 0.04 0.00580 0.00 0.99973 Sec16 III 9129783 c.3136C>A p.Gln1046Lys missense WBGene00013985 sec-16 Protein transport protein same as above 0.04 0.02981 0.02 0.72379 Sec16 III 9129783 c.3112C>A p.Gln1038Lys missense WBGene00013985 sec-16 Protein transport protein same as above 0.04 0.02981 0.02 0.72379 Sec16 III 9131186 c.200G>T p.Ser67Ile missense WBGene00013988 ZK512.10 hypothetical protein -0.06 0.01755 0.00 0.83183 Continued ... Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 III 9147594 c.*12T>C 3 prime UTR WBGene00003597 nhl-1 protein ubiquitination -0.04 0.00797 III 9147746 c.2785G>A p.Ala929Thr missense WBGene00003597 nhl-1 NHL (ring finger b-box protein ubiquitination 0.08 0.00000 0.01 0.97152 coiled coil) domain containing III 9149568 c.1346C>T p.Pro449Leu missense WBGene00003597 nhl-1 NHL (ring finger b-box protein ubiquitination 0.09 0.00005 0.01 0.96874 coiled coil) domain containing III 9156944 c.1018G>A p.Gly340Ser missense WBGene00010074 irld-34 Protein irld-34 -0.05 0.01263 -0.00 0.49069 III 9156945 c.1019G>A p.Gly340Asp missense WBGene00010074 irld-34 Protein irld-34 -0.04 0.01701 -0.02 0.14581 III 9192988 c.*231A>T 3 prime UTR WBGene00013849 ZC84.6 0.02 0.00904 0.00 0.95863 III 9233016 c.1374+6G>A splice and intron WBGene00011962 T23G5.2 CRAL-TRIO domain- -0.06 0.00000 -0.01 0.34815 containing protein T23G5.2 III 9236250 c.63+3A>G splice and intron WBGene00011962 T23G5.2 CRAL-TRIO domain- -0.05 0.00028 -0.02 0.04475 containing protein T23G5.2 III 9242370 c.*174C>A 3 prime UTR WBGene00011964 saeg-2 -0.06 0.00000 -0.00 0.93439 III 9296272 c.*255A>G 3 prime UTR WBGene00010453 fozi-1 mesodermal cell fate specification; pos- -0.06 0.00000 0.00 0.94442 itive regulation of mesodermal cell fate specification III 9296478 c.*461G>A 3 prime UTR WBGene00010453 fozi-1 same as above 0.03 0.01375 -0.01 0.92244 III 9296479 c.*462T>A 3 prime UTR WBGene00010453 fozi-1 same as above 0.03 0.04111 -0.01 0.88979 III 9296515 c.*498G>A 3 prime UTR WBGene00010453 fozi-1 same as above -0.04 0.00688 -0.03 0.22123 III 9304117 c.1003T>A p.Ser335Thr missense WBGene00005936 srx-45 Serpentine receptor class X 0.08 0.00001 0.02 0.81302 45 III 9318322 c.69G>A p.Met23Ile missense WBGene00008038 C40H1.2 hypothetical protein -0.05 0.00010 -0.02 0.37843 III 9337157 c.*6C>A 3 prime UTR WBGene00001263 emb-9 embryo development ending in birth or 0.02 0.00022 0.01 0.88334 egg hatching; extracellular matrix organization; muscle organ development; nematode larval development; positive regulation of axon regeneration; positive regulation of protein secretion III 9339209 c.2938G>A p.Glu980Lys missense WBGene00001263 emb-9 Collagen alpha-1(IV) chain same as above 0.06 0.00171 0.02 0.84033 III 9339209 c.3709G>A p.Glu1237Lys missense WBGene00001263 emb-9 Collagen alpha-1(IV) chain same as above 0.06 0.00171 0.02 0.84033 III 9360794 c.378T>G p.Phe126Leu missense WBGene00010574 K04H4.5 hypothetical protein 0.09 0.00000 -0.00 0.99840 III 9384282 c.796G>C p.Val266Leu missense WBGene00008001 C38C10.3 Probable G-protein coupled 0.06 0.00000 0.02 0.44935 receptor tkr-1 III 9387597 c.1213G>A p.Glu405Lys missense WBGene00006576 tkr-1 Probable G-protein coupled 0.09 0.00000 0.00 0.99428 receptor tkr-1 III 9389078 c.389T>G p.Val130Gly missense WBGene00008000 slc-17.2 Uncharacterized transporter anion transport; sodium ion transport; -0.06 0.00002 0.00 0.77077 slc-17.2 transmembrane transport III 9391703 c.1336T>C p.Ser446Pro missense WBGene00001689 gpr-2 G-protein regulator 2 cell cycle; cell division -0.04 0.00592 0.00 0.82555 III 9436501 c.2495G>A p.Arg832Lys missense WBGene00001284 emb-30 Abnormal embryogenesis anaphase-promoting complex-dependent -0.05 0.00591 0.00 0.97905 protein 30 catabolic process; anterior/posterior axis specification, embryo; asymmetric cell division; metaphase/anaphase transition of meiosis I; negative regulation of gene expression; neurotransmitter transport; polarity specification of anterior/posterior axis; protein ubiquitination; regulation of mitotic metaphase/anaphase transition III 9443403 c.-43C>T 5 prime UTR WBGene00010037 F54C8.4 -0.04 0.01541 -0.01 0.32872 Continued ... Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 III 9459327 c.1214A>G p.Lys405Arg missense WBGene00004980 spk-1 SR Protein Kinase embryo development ending in birth or 0.07 0.00000 0.01 0.94222 egg hatching; intracellular signal transduction; protein phosphorylation; regulation of mRNA processing; spliceosomal complex assembly III 9459327 c.62A>G p.Lys21Arg missense WBGene00004980 spk-1 SR Protein Kinase same as above 0.07 0.00000 0.01 0.94222 III 9459327 c.350A>G p.Lys117Arg missense WBGene00004980 spk-1 SR Protein Kinase same as above 0.07 0.00000 0.01 0.94222 III 9461138 c.874A>G p.Arg292Gly missense WBGene00004980 spk-1 SR Protein Kinase same as above -0.05 0.00059 -0.01 0.97286 III 9461138 c.1339A>G p.Arg447Gly missense WBGene00004980 spk-1 SR Protein Kinase same as above -0.05 0.00059 -0.01 0.97286 III 9461138 c.1162A>G p.Arg388Gly missense WBGene00004980 spk-1 SR Protein Kinase same as above -0.05 0.00059 -0.01 0.97286 III 9461138 c.2026A>G p.Arg676Gly missense WBGene00004980 spk-1 SR Protein Kinase same as above -0.05 0.00059 -0.01 0.97286 III 9469058 c.562C>T p.Leu188Phe missense WBGene00007187 tag-342 hypothetical protein -0.05 0.00200 -0.01 0.91077 III 9488641 c.-92C>T 5 prime UTR WBGene00007185 nlp-36 0.08 0.00000 0.02 0.82032 premature start codon gain III 9488641 c.-92C>T 5 prime UTR WBGene00007185 nlp-36 0.08 0.00000 0.02 0.82032 III 9488643 c.-90G>A 5 prime UTR WBGene00007185 nlp-36 0.08 0.00003 0.01 0.91899 III 9488690 c.-43C>T 5 prime UTR WBGene00007185 nlp-36 -0.06 0.00021 0.00 0.94066 III 9491677 c.20A>G p.Asp7Gly missense WBGene00007184 ctr-9 R polymerase-associated histone modification; regulation of his- -0.06 0.00000 -0.00 0.92715 protein CTR9 tone H3-K4 methylation; regulation of transcription, DNA-templated III 9517642 c.3442C>A p.Leu1148Ile missense WBGene00000550 clu-1 Clustered mitochondria pro- intracellular distribution of mitochondria 0.08 0.00000 0.02 0.70691 tein homolog III 9518733 c.2587A>G p.Ser863Gly missense WBGene00000550 clu-1 Clustered mitochondria pro- same as above -0.05 0.00221 -0.00 0.99973 tein homolog III 9535530 c.1874A>G p.Asp625Gly missense WBGene00014220 ZK1098.3 hypothetical protein -0.05 0.00000 -0.01 0.93286 III 9535701 c.1703C>T p.Ser568Leu missense WBGene00014220 ZK1098.3 hypothetical protein -0.04 0.00023 -0.02 0.58339 III 9544563 c.113A>C p.His38Pro missense WBGene00014225 ZK1098.9 hypothetical protein 0.03 0.00218 0.00 0.99869 III 9545586 c.211-7A>T splice and intron WBGene00194691 ZK1098.12 hypothetical protein -0.04 0.00208 -0.03 0.09504 III 9558557 c.-5G>A 5 prime UTR WBGene00008169 C48B4.6 0.03 0.00076 0.01 0.43744 III 9564486 c.16G>A p.Asp6Asn missense WBGene00008173 C48B4.10 hypothetical protein -0.06 0.00168 -0.01 0.86666 III 9592446 c.1144T>G p.Phe382Val missense WBGene00004401 rom-2 Rhomboid-related protein 2 protein processing 0.09 0.00000 0.01 0.98967 III 9595332 c.104A>T p.Gln35Leu missense WBGene00004401 rom-2 Rhomboid-related protein 2 same as above -0.05 0.00005 -0.01 0.81065 III 9597784 c.88C>T p.Pro30Ser missense WBGene00008175 C48B4.12 hypothetical protein -0.04 0.00394 -0.02 0.58980 III 9597784 c.79C>T p.Pro27Ser missense WBGene00008175 C48B4.12 hypothetical protein -0.04 0.00394 -0.02 0.58980 III 9607259 c.900A>C p.Lys300Asn missense WBGene00010228 clec-161 C-type lectin domain- 0.04 0.00146 0.01 0.97321 containing protein 161 III 9685889 c.506A>T p.His169Leu missense WBGene00007406 C07A9.10 hypothetical protein 0.07 0.00000 0.02 0.46383 III 9687050 c.1342C>T p.Pro448Ser missense WBGene00007404 best-5 Bestrophin homolog 5 -0.06 0.00000 -0.03 0.48271 III 9691151 c.*88C>T 3 prime UTR WBGene00007403 set-3 -0.05 0.00087 -0.01 0.53048 III 9691151 c.*150C>T 3 prime UTR WBGene00007403 set-3 -0.05 0.00087 -0.01 0.53048 III 9739190 c.*167A>T 3 prime UTR WBGene00011498 T05G5.1 -0.04 0.00136 -0.04 0.22936 Continued ... Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 III 9747455 c.-19T>C 5 prime UTR WBGene00000405 cdk-1 anterior/posterior axis specification, em- -0.04 0.01420 -0.01 0.54946 bryo; cell division; DNA repair; histone phosphorylation; meiotic cell cycle; microtubule cytoskeleton organization; mitotic cell cycle; mitotic cell cycle phase transition; oocyte maturation; positive regulation of meiotic cell cycle; positive regulation of meiotic nuclear division; positive regulation of proteasomal ubiquitin-dependent protein catabolic process; positive regulation of protein serine/threonine kinase activity; protein phosphorylation; regulation of gene expression; regulation of mitotic cell cycle III 9752842 c.34G>T p.Ala12Ser missense WBGene00001155 ech-6 Probable enoyl-CoA hy- fatty acid beta-oxidation 0.08 0.00000 0.02 0.68994 dratase, mitochondrial III 9753797 c.*31A>T 3 prime UTR WBGene00011502 vps-53 negative regulation of dense core granule 0.08 0.00003 0.02 0.80326 transport; positive regulation of dense core granule transport; positive regulation of locomotion involved in locomotory behavior; regulation of brood size; retrograde transport, endosome to Golgi III 9772010 c.4596A>T p.Glu1532Asp missense WBGene00000366 cbp-1 Protein cbp-1 apoptotic process; embryo development 0.09 0.00000 0.02 0.83375 ending in birth or egg hatching; histone acetylation; internal peptidyl-lysine acetylation; positive regulation of apoptotic process; positive regulation of transcription from RNA polymerase II promoter; regulation of neuron projection development; regulation of transcription, DNA-templated; spermatogenesis; transcription, DNA-templated III 9772010 c.4629A>T p.Glu1543Asp missense WBGene00000366 cbp-1 Protein cbp-1 same as above 0.09 0.00000 0.02 0.83375 III 9785263 c.809C>T p.Ala270Val missense WBGene00011218 R10E11.6 hypothetical protein 0.09 0.00000 0.01 0.95813 III 9799884 c.341A>G p.Lys114Arg missense WBGene00014011 ZK632.2 hypothetical protein -0.03 0.03865 III 9812481 c.2418T>A p.Asp806Glu missense WBGene00014014 ZK632.5 hypothetical protein -0.04 0.02705 -0.02 0.55963 III 9821016 c.934G>A p.Asp312Asn missense WBGene00014015 panl-3 PAB-dependent poly(A)- deadenylation-dependent decapping 0.09 0.00000 0.01 0.92400 specific ribonuclease subunit of nuclear-transcribed mRNA; mRNA PAN3 processing; nuclear-transcribed mRNA poly(A) tail shortening; positive regulation of cytoplasmic mRNA processing body assembly; reproduction; RNA phosphodiester bond hydrolysis, exonucleolytic III 9824044 c.*70G>T 3 prime UTR WBGene00000189 arl-5 microtubule cytoskeleton organiza- -0.01 0.02483 tion; protein transport; small GTPase mediated signal transduction; vesicle- mediated transport III 9824135 c.*23A>T 3 prime UTR WBGene00003035 lin-52 cell cycle; embryo development ending in -0.04 0.00100 -0.03 0.46109 birth or egg hatching; negative regulation of signal transduction; regulation of transcription, DNA-templated; transcription, DNA-templated III 9825091 c.*34T>C 3 prime UTR WBGene00014016 ZK632.9 -0.02 0.00251 0.00 0.71111 III 9833822 c.599T>C p.Ile200Thr missense WBGene00010781 K11H3.4 hypothetical protein -0.05 0.00129 0.01 0.98550 Continued ... Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 III 9856693 c.170A>C p.Asn57Thr missense WBGene00010778 gpdh-2 Glycerol-3-phosphate dehy- carbohydrate metabolic process; -0.03 0.00697 -0.02 0.69487 drogenase [D(+)] glycerol-3-phosphate catabolic process; hyperosmotic response; intracellular accumulation of glycerol III 9856693 c.266A>C p.Asn89Thr missense WBGene00010778 gpdh-2 Glycerol-3-phosphate dehy- same as above -0.03 0.00697 -0.02 0.69487 drogenase [D(+)] III 9856693 c.230A>C p.Asn77Thr missense WBGene00010778 gpdh-2 Glycerol-3-phosphate dehy- same as above -0.03 0.00697 -0.02 0.69487 drogenase [D(+)] III 9864863 c.-55C>T 5 prime UTR WBGene00014075 dhhc-4 DHHC-types zinc finger pro- -0.05 0.00001 -0.01 0.46919 tein III 9870075 c.436A>T p.Ile146Phe missense WBGene00014073 ZK757.1 hypothetical protein 0.07 0.00000 0.02 0.67150 III 9870075 c.-240A>T 5 prime UTR WBGene00014073 ZK757.1 hypothetical protein 0.07 0.00000 0.02 0.67150 III 9870076 c.-241A>T 5 prime UTR WBGene00014073 ZK757.1 hypothetical protein 0.07 0.00001 0.02 0.56862 III 9870077 c.434C>T p.Ser145Leu missense WBGene00014073 ZK757.1 hypothetical protein 0.07 0.00000 0.02 0.45661 III 9870077 c.-242C>T 5 prime UTR WBGene00014073 ZK757.1 hypothetical protein 0.07 0.00000 0.02 0.45661 III 9874838 c.653G>A p.Arg218Lys missense and WBGene00014074 ZK757.2 hypothetical protein 0.08 0.00000 0.02 0.61240 splice III 9887333 c.3082A>G p.Thr1028Ala missense WBGene00006449 alg-4 Putative protein tag-76 spermatogenesis -0.04 0.02091 -0.00 0.99687 III 9887333 c.3091A>G p.Thr1031Ala missense WBGene00006449 alg-4 Putative protein tag-76 same as above -0.04 0.02091 -0.00 0.99687 III 9895510 c.650+7G>C splice and intron WBGene00009593 mam-7 MAM (Meprin, A5-protein, -0.01 0.00907 0.00 0.98671 PTPmu) domain protein III 9895542 c.651-7T>C splice and intron WBGene00009593 mam-7 MAM (Meprin, A5-protein, -0.03 0.02205 0.00 0.87123 PTPmu) domain protein III 9896249 c.1013A>G p.Lys338Arg missense WBGene00009593 mam-7 MAM (Meprin, A5-protein, -0.05 0.00000 0.00 0.95178 PTPmu) domain protein III 9896314 c.1078A>G p.Asn360Asp missense WBGene00009593 mam-7 MAM (Meprin, A5-protein, -0.06 0.00011 0.00 0.99323 PTPmu) domain protein III 9896475 c.1156T>G p.Ser386Ala missense WBGene00009593 mam-7 MAM (Meprin, A5-protein, -0.05 0.02435 0.00 0.86901 PTPmu) domain protein III 9897183 c.1328-7T>A splice and intron WBGene00009593 mam-7 MAM (Meprin, A5-protein, -0.06 0.00010 0.00 0.97508 PTPmu) domain protein III 9898924 c.*74T>A 3 prime UTR WBGene00009594 cyld-1 protein deubiquitination -0.04 0.02263 -0.02 0.90106 III 9901238 c.619G>C p.Gly207Arg missense WBGene00009594 cyld-1 CYLinDromatosis (human same as above -0.04 0.00068 -0.00 0.99552 disease gene) homolog III 9901238 c.1549G>C p.Gly517Arg missense WBGene00009594 cyld-1 CYLinDromatosis (human same as above -0.04 0.00068 -0.00 0.99552 disease gene) homolog III 9901238 c.793G>C p.Gly265Arg missense WBGene00009594 cyld-1 CYLinDromatosis (human same as above -0.04 0.00068 -0.00 0.99552 disease gene) homolog III 9902811 c.244C>T p.Pro82Ser missense WBGene00009594 cyld-1 CYLinDromatosis (human same as above -0.05 0.00387 0.01 0.97939 disease gene) homolog III 9902811 c.70C>T p.Pro24Ser missense WBGene00009594 cyld-1 CYLinDromatosis (human same as above -0.05 0.00387 0.01 0.97939 disease gene) homolog III 9902811 c.1000C>T p.Pro334Ser missense WBGene00009594 cyld-1 CYLinDromatosis (human same as above -0.05 0.00387 0.01 0.97939 disease gene) homolog III 9909709 c.449C>A p.Thr150Lys missense WBGene00009594 cyld-1 CYLinDromatosis (human same as above 0.07 0.00003 0.01 0.97877 disease gene) homolog III 9914912 c.223+7C>A splice and intron WBGene00009595 F40F12.7 hypothetical protein regulation of transcription, DNA- -0.05 0.02538 -0.00 0.86706 templated III 9915296 c.433T>C p.Ser145Pro missense WBGene00009595 F40F12.7 hypothetical protein same as above -0.05 0.01833 0.00 0.98868 III 9915674 c.*45T>C 3 prime UTR WBGene00009595 F40F12.7 same as above 0.08 0.00001 0.01 0.88664 III 9915674 c.*167T>C 3 prime UTR WBGene00009595 F40F12.7 same as above 0.08 0.00001 0.01 0.88664 III 9919004 c.598C>A p.Leu200Ile missense WBGene00009592 F40F12.3 hypothetical protein -0.05 0.04037 -0.00 0.99887 Continued ... Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 III 9923933 c.479C>A p.Pro160Gln missense WBGene00010545 cbp-2 CBP/p300 homolog regulation of transcription, DNA- -0.04 0.03452 -0.02 0.73064 templated III 9932940 c.178A>C p.Ser60Arg missense WBGene00010540 K03H1.5 hypothetical protein cell-matrix adhesion -0.04 0.00194 -0.02 0.82946 III 9932985 c.223A>G p.Lys75Glu missense WBGene00010540 K03H1.5 hypothetical protein same as above -0.04 0.01648 -0.01 0.98693 III 9937251 c.2710+6A>T splice and intron WBGene00010540 K03H1.5 hypothetical protein same as above -0.05 0.01382 0.00 1.00000 III 9939436 c.4045T>C p.Ser1349Pro missense WBGene00010540 K03H1.5 hypothetical protein same as above -0.06 0.00089 0.00 0.94557 III 9939551 c.*2T>A 3 prime UTR WBGene00010540 K03H1.5 same as above -0.05 0.00335 0.00 0.94447 III 9939563 c.*14A>T 3 prime UTR WBGene00010540 K03H1.5 same as above -0.05 0.00112 0.00 0.99586 III 9939587 c.*38A>G 3 prime UTR WBGene00010540 K03H1.5 same as above -0.05 0.01818 0.00 0.99973 III 9939706 c.*157C>G 3 prime UTR WBGene00010540 K03H1.5 same as above -0.03 0.00936 0.00 0.99765 III 9941058 c.233T>A p.Leu78His missense WBGene00010544 K03H1.9 hypothetical protein -0.05 0.00394 -0.00 0.99854 III 9941076 c.215T>A p.Ile72Asn missense WBGene00010544 K03H1.9 hypothetical protein -0.05 0.02107 -0.00 0.90992 III 9941085 c.206T>C p.Leu69Ser missense WBGene00010544 K03H1.9 hypothetical protein -0.06 0.03012 0.00 0.96416 III 9941088 c.203C>T p.Thr68Ile missense WBGene00010544 K03H1.9 hypothetical protein -0.05 0.02923 0.00 0.95416 III 9941142 c.149C>T p.Thr50Ile missense WBGene00010544 K03H1.9 hypothetical protein -0.05 0.01253 -0.00 0.98824 III 9941187 c.104G>A p.Arg35Gln missense WBGene00010544 K03H1.9 hypothetical protein -0.05 0.00339 0.01 0.95987 III 9941241 c.50T>G p.Leu17Arg missense WBGene00010544 K03H1.9 hypothetical protein -0.06 0.02177 0.00 0.99973 III 9941281 c.10C>T p.Arg4Cys missense WBGene00010544 K03H1.9 hypothetical protein -0.05 0.02141 0.00 0.99953 III 9941400 c.-108-2A>T splice acceptor WBGene00010544 K03H1.9 -0.07 0.00045 -0.00 0.99953 and intron III 9941676 c.-11A>C 5 prime UTR WBGene00010547 K03H1.12 -0.05 0.01045 -0.01 0.78391 III 9941690 c.1+3G>C splice and intron WBGene00010547 K03H1.12 -0.06 0.00005 0.00 0.61242 III 9941695 c.1+8G>T splice and intron WBGene00010547 K03H1.12 -0.06 0.00002 0.00 0.52697 III 9942326 c.*31A>G 3 prime UTR WBGene00010547 K03H1.12 -0.05 0.01180 -0.01 0.83153 III 9943243 c.*73G>A 3 prime UTR WBGene00001603 gln-2 glutamine biosynthetic process 0.07 0.00000 0.00 0.99420 III 9943248 c.*68C>T 3 prime UTR WBGene00001603 gln-2 same as above -0.04 0.00864 0.00 0.88129 III 9943260 c.*56G>A 3 prime UTR WBGene00001603 gln-2 same as above -0.05 0.00303 0.00 0.98347 III 9943282 c.*34A>G 3 prime UTR WBGene00001603 gln-2 same as above -0.06 0.00439 0.01 0.92995 III 9943302 c.*14A>T 3 prime UTR WBGene00001603 gln-2 same as above -0.05 0.01287 -0.00 0.99585 III 9943986 c.479A>C p.Asp160Ala missense WBGene00001603 gln-2 Probable glutamine syn- same as above -0.05 0.00289 -0.01 0.89210 thetase III 9944584 c.94G>T p.Ala32Ser missense WBGene00001603 gln-2 Probable glutamine syn- same as above -0.05 0.02476 -0.01 0.99552 thetase III 9944690 c.-6-7C>T splice and intron WBGene00001603 gln-2 same as above -0.04 0.03546 -0.03 0.65256 III 9947899 c.*98G>T 3 prime UTR WBGene00010542 K03H1.7 hypothetical protein 0.09 0.00016 0.02 0.85270 III 9948198 c.1087G>C p.Val363Leu missense WBGene00044903 K03H1.13 hypothetical protein 0.07 0.00627 0.02 0.80743 III 9996974 c.823G>A p.Gly275Arg missense WBGene00004100 pqn-8 Prion-like-(Q/N-rich) 0.09 0.00000 -0.01 0.94016 domain-bearing protein 8 III 10040132 c.-43C>A 5 prime UTR WBGene00011808 T16G12.7 0.07 0.00000 0.00 0.99759 III 10040314 c.5610G>A p.Met1870Ile missense WBGene00011803 T16G12.1 hypothetical protein embryo development ending in birth -0.01 0.03033 0.00 0.93278 or egg hatching; oogenesis; peptide catabolic process; proteolysis; regulation of meiotic cell cycle process involved in oocyte maturation; regulation of oviposition III 10040582 c.5392C>T p.Leu1798Phe missense WBGene00011803 T16G12.1 hypothetical protein same as above -0.02 0.01359 III 10043440 c.3779A>T p.Tyr1260Phe missense WBGene00011803 T16G12.1 hypothetical protein same as above -0.05 0.03493 -0.02 0.96192 III 10048541 c.469A>G p.Ile157Val missense WBGene00011803 T16G12.1 hypothetical protein same as above 0.07 0.00000 -0.01 0.86838 III 10048649 c.361G>A p.Val121Met missense WBGene00011803 T16G12.1 hypothetical protein same as above -0.03 0.00001 0.00 0.98987 Continued ... Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 III 10052980 c.535C>A p.Arg179Ser missense WBGene00011804 T16G12.3 hypothetical protein -0.04 0.00711 -0.06 0.01148 III 10053390 c.*315T>G 3 prime UTR WBGene00011804 T16G12.3 0.07 0.00000 0.02 0.54860 III 10053496 c.*421C>G 3 prime UTR WBGene00011804 T16G12.3 -0.06 0.03314 -0.02 0.28298 III 10053740 c.*665T>G 3 prime UTR WBGene00011804 T16G12.3 -0.04 0.00022 -0.03 0.54866 III 10053743 c.*668A>C 3 prime UTR WBGene00011804 T16G12.3 0.08 0.00000 0.00 0.99795 III 10059438 c.137G>A p.Trp46* stop gained WBGene00011809 T16G12.8 hypothetical protein -0.05 0.03917 -0.01 0.99339 III 10068768 c.3314A>G p.Asp1105Gly missense WBGene00011806 ekl-6 hypothetical protein 0.07 0.00000 -0.00 0.98879 III 10072912 c.1525G>T p.Gly509Cys missense WBGene00011807 T16G12.6 hypothetical protein protein import into nucleus 0.07 0.00000 0.00 0.99353 III 10073991 c.1827A>C p.Glu609Asp missense WBGene00011807 T16G12.6 hypothetical protein same as above -0.01 0.02215 0.00 0.79370 III 10083719 c.125T>C p.Phe42Ser missense WBGene00011811 T16H12.1 hypothetical protein -0.04 0.00546 -0.04 0.37420 III 10084803 c.879+8T>C splice and intron WBGene00011811 T16H12.1 hypothetical protein 0.06 0.00000 -0.02 0.72229 III 10084803 c.708+8T>C splice and intron WBGene00011811 T16H12.1 hypothetical protein 0.06 0.00000 -0.02 0.72229 III 10085832 c.287T>C p.Phe96Ser missense WBGene00194725 T16H12.13 hypothetical protein -0.04 0.03781 -0.05 0.35067 III 10085967 c.422G>C p.Arg141Pro missense WBGene00194725 T16H12.13 hypothetical protein -0.05 0.04373 -0.03 0.77561 III 10088840 c.*14A>T 3 prime UTR WBGene00011814 T16H12.4 nucleotide-excision repair; regulation of -0.06 0.00731 0.01 0.98189 transcription from RNA polymerase II promoter; transcription, DNA-templated III 10141275 c.244A>G p.Thr82Ala missense WBGene00195174 K08E5.6 hypothetical protein -0.05 0.01744 -0.03 0.78875 III 10155556 c.498-7G>T splice and intron WBGene00003519 nac-3 Sodium-dependent high- determination of adult lifespan; succinate -0.03 0.00063 affinity dicarboxylate trans- transport porter 3 III 10155556 c.762-7G>T splice and intron WBGene00003519 nac-3 Sodium-dependent high- same as above -0.03 0.00063 affinity dicarboxylate transporter 3 III 10183044 c.9336G>A p.Met3112Ile missense WBGene00003482 mua-3 Transmembrane cell adhe- cell-matrix adhesion -0.03 0.00011 0.00 0.99937 sion receptor mua-3 III 10183044 c.11088G>A p.Met3696Ile missense WBGene00003482 mua-3 Transmembrane cell adhe- cell-matrix adhesion -0.03 0.00011 0.00 0.99937 sion receptor mua-3 III 10216532 c.86C>T p.Ala29Val missense WBGene00000833 cts-1 Probable citrate synthase, carbohydrate metabolic process; tricar- -0.02 0.03824 0.00 0.98218 mitochondrial boxylic acid cycle III 10228540 c.4174C>G p.Pro1392Ala missense WBGene00013498 Y70G10A.2 hypothetical protein 0.03 0.04387 0.01 0.94461 III 10232847 c.830C>T p.Ser277Leu missense WBGene00013498 Y70G10A.2 hypothetical protein 0.03 0.01637 0.00 0.98347 III 10232956 c.721C>A p.Pro241Thr missense WBGene00013498 Y70G10A.2 hypothetical protein -0.02 0.00040 0.00 0.99662 III 10233276 c.401C>A p.Thr134Asn missense WBGene00013498 Y70G10A.2 hypothetical protein 0.03 0.00513 -0.01 0.96791 III 10242152 c.1219A>G p.Ile407Val missense WBGene00013499 Y70G10A.3 Solute carrier organic anion sodium-independent organic anion trans- 0.05 0.00009 0.01 0.90790 transporter family member port III 10247639 c.343C>T p.Pro115Ser missense WBGene00001002 div-1 D polymerase alpha subunit DNA replication initiation 0.05 0.00997 0.00 0.99562 B III 10279232 c.104A>G p.Tyr35Cys missense WBGene00010757 pad-2 GDP-fucose protein O- fucose metabolic process; protein O- -0.04 0.02352 fucosyltransferase 2 linked fucosylation III 10280741 c.970C>A p.Gln324Lys missense WBGene00010757 pad-2 GDP-fucose protein O- same as above 0.02 0.00379 -0.01 0.94014 fucosyltransferase 2 III 10280741 c.964C>A p.Gln322Lys missense WBGene00010757 pad-2 GDP-fucose protein O- same as above 0.02 0.00379 -0.01 0.94014 fucosyltransferase 2 III 10319342 c.184+8A>C splice and intron WBGene00006802 unc-69 hypothetical protein regulation of axon extension; regulation 0.05 0.00011 0.01 0.98106 of synapse organization III 10385195 c.*434T>A 3 prime UTR WBGene00008019 C38H2.2 O-glycan processing, core 1 0.03 0.00002 -0.01 0.44318 III 10399562 c.2233-8T>C splice and intron WBGene00010839 chl-1 ATP-dependent D helicase DNA repair; positive regulation of cell -0.02 0.04911 chl-1 proliferation III 10400603 c.1814G>A p.Arg605Gln missense WBGene00010839 chl-1 ATP-dependent D helicase same as above 0.05 0.02921 0.01 0.95145 chl-1 Continued ... Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 III 10417227 c.215C>T p.Thr72Met missense WBGene00010842 ymel-1 ATP-dependent zinc metal- -0.01 0.00445 -0.01 0.76213 loprotease YME1 homolog III 10417248 c.236G>A p.Arg79Lys missense WBGene00010842 ymel-1 ATP-dependent zinc metal- -0.03 0.04752 -0.02 0.73876 loprotease YME1 homolog III 10433216 c.1405C>A p.Gln469Lys missense WBGene00010845 M03C11.8 SWI/SNF-related matrix- covalent chromatin modification; DNA -0.01 0.02778 -0.00 0.98692 associated actin-dependent repair regulator of chromatin subfamily A containing DEAD/H box 1 homolog III 10435417 c.411G>A p.Glu137Glu splice and syn- WBGene00010845 M03C11.8 SWI/SNF-related matrix- same as above -0.03 0.01257 0.00 0.99502 onymous associated actin-dependent regulator of chromatin subfamily A containing DEAD/H box 1 homolog III 10441110 c.845C>T p.Ser282Phe missense WBGene00010363 H04D03.2 hypothetical protein 0.04 0.04352 0.00 0.99705 III 10446017 c.1855G>C p.Asp619His missense WBGene00010365 H04D03.4 hypothetical protein -0.04 0.00037 0.00 0.99514 2. Change-of-function mutations on chromosome X, 7-9 Mb, significant selection coefficient from transfer 1 to 12

Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 X 7029557 c.*45C>A 3 prime UTR WBGene00020126 flp-26 neuropeptide signaling pathway 0.04 0.01314 0.00 0.99705 X 7029631 c.*119T>A 3 prime UTR WBGene00020126 flp-26 same as above -0.04 0.03029 0.03 0.56556 X 7053444 c.939T>C p.Asp313Asp splice and syn- WBGene00006712 ubc-17 Probable ubiquitin- regulation of signal transduction 0.04 0.00156 -0.01 0.96099 onymous conjugating enzyme protein 17 X 7059626 c.739-6A>G splice and intron WBGene00015169 B0403.5 hypothetical protein 0.04 0.00624 0.01 0.97444 X 7059702 c.809T>C p.Ile270Thr missense WBGene00015169 B0403.5 hypothetical protein 0.04 0.03408 0.00 0.99791 X 7142611 c.307G>A p.Asp103Asn missense WBGene00000116 alh-10 ALdehyde deHydrogenase 0.04 0.00190 0.00 0.99623 X 7148287 c.1750C>T p.Leu584Phe missense WBGene00016913 lam-2 Laminin-like protein lam-2 positive regulation of locomotion 0.04 0.01402 -0.00 0.99687 X 7155998 c.-61C>A 5 prime UTR WBGene00016914 C54D1.7 -0.05 0.02108 0.04 0.56566 X 7169077 c.625G>A p.Ala209Thr missense WBGene00000238 bar-1 Beta-catenin/armadillo- adherens junction assembly; cell adhe- -0.04 0.01578 0.01 0.98033 related protein 1 sion; cell fate specification; cellular response to oxidative stress; dauer larval development; defense response to Gram-positive bacterium; determination of adult lifespan; establishment of mitotic spindle orientation; hermaphrodite genitalia development; left/right axis specification; mating behavior; morphogenesis of an epithelium; oviposition; positive regulation of distal tip cell migration; positive regulation of transcription from RNA polymerase II promoter; positive regulation of vulval development; Ras protein signal transduction; regulation of backward locomotion; regulation of cell fate specification; regulation of cell migration; regulation of vulval development; transcription, DNA-templated; Wnt signaling pathway X 7218396 c.-72A>T 5 prime UTR WBGene00044068 syd-9 -0.05 0.00050 0.01 0.96502 X 7218396 c.-257A>T 5 prime UTR WBGene00044068 syd-9 -0.05 0.00050 0.01 0.96502 X 7221257 c.428G>T p.Gly143Val missense WBGene00044068 syd-9 hypothetical protein -0.05 0.01669 0.01 0.97795 X 7221257 c.143G>T p.Gly48Val missense WBGene00044068 syd-9 hypothetical protein -0.05 0.01669 0.01 0.97795 X 7221257 c.377G>T p.Gly126Val missense WBGene00044068 syd-9 hypothetical protein -0.05 0.01669 0.01 0.97795 X 7226481 c.*698T>C 3 prime UTR WBGene00044068 syd-9 -0.05 0.02673 0.03 0.73040 X 7226481 c.*436T>C 3 prime UTR WBGene00044068 syd-9 -0.05 0.02673 0.03 0.73040 X 7226532 c.*487A>G 3 prime UTR WBGene00044068 syd-9 0.04 0.02187 0.01 0.89951 X 7226532 c.*749A>G 3 prime UTR WBGene00044068 syd-9 0.04 0.02187 0.01 0.89951 X 7256757 c.169G>A p.Ala57Thr missense WBGene00018521 F46H5.5 hypothetical protein -0.05 0.02715 -0.03 0.87220 X 7258651 c.875C>T p.Ala292Val missense WBGene00018523 lact-1 beta-LACTamase domain -0.04 0.04765 0.01 0.99542 containing X 7267304 c.1258G>A p.Val420Met missense WBGene00018518 F46H5.2 hypothetical protein -0.05 0.00085 0.01 0.97702 X 7267304 c.985G>A p.Val329Met missense WBGene00018518 F46H5.2 hypothetical protein -0.05 0.00085 0.01 0.97702 X 7305418 c.152C>T p.Pro51Leu missense WBGene00006351 sur-5 Acetoacetyl-CoA synthetase fatty acid metabolic process 0.04 0.03096 -0.01 0.90877 X 7322237 c.125A>T p.Glu42Val missense WBGene00044442 T08A9.13 hypothetical protein 0.04 0.01371 0.01 0.94336 Continued ... Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 X 7336555 c.1452A>T p.Lys484Asn missense WBGene00020334 atg-11 Ectopic P Granules autophagosome assembly; autophagy of 0.06 0.00100 -0.01 0.99136 mitochondrion; autophagy of peroxi- some; glycophagy; positive regulation of macroautophagy; positive regulation of protein phosphorylation; reticulophagy X 7342493 c.860C>T p.Ala287Val missense WBGene00015565 C07D8.6 hypothetical protein -0.06 0.00016 -0.01 0.96628 X 7366146 c.*140C>G 3 prime UTR WBGene00016985 C56G3.2 -0.05 0.03769 0.01 0.97054 X 7366248 c.*242T>G 3 prime UTR WBGene00016985 C56G3.2 -0.04 0.02209 -0.01 0.99552 X 7384575 c.-95A>T 5 prime UTR WBGene00016984 npr-8 NeuroPeptide Receptor fam- 0.04 0.00844 0.01 0.97745 ily X 7397899 c.-72G>A 5 prime UTR WBGene00206485 C10A4.13 0.03 0.03932 0.02 0.75053 X 7402296 c.122T>G p.Phe41Cys missense WBGene00015665 C10A4.4 hypothetical protein -0.05 0.00483 0.01 0.98106 X 7402802 c.487G>A p.Ala163Thr missense WBGene00015665 C10A4.4 hypothetical protein 0.03 0.03356 -0.00 0.99114 X 7437329 c.316A>T p.Met106Leu missense WBGene00015294 C01C10.2 hypothetical protein -0.05 0.00084 0.00 0.99673 X 7458427 c.*590A>C 3 prime UTR WBGene00004949 sox-2 neuron fate specification; regulation -0.05 0.00490 0.02 0.88253 of transcription, DNA-templated; transcription, DNA-templated X 7465291 c.*1030A>G 3 prime UTR WBGene00000591 coh-1 -0.05 0.03569 0.01 0.99428 X 7465641 c.*680A>T 3 prime UTR WBGene00000591 coh-1 -0.05 0.02017 0.00 0.99687 X 7465939 c.*382C>T 3 prime UTR WBGene00000591 coh-1 0.04 0.02783 0.01 0.95863 X 7481947 c.328G>A p.Asp110Asn missense WBGene00018608 F48E3.9 hypothetical protein -0.05 0.02807 0.03 0.78640 X 7488165 c.970A>G p.Ile324Val missense WBGene00001637 gly-12 GLYcosylation related protein N-linked glycosylation 0.04 0.02846 0.00 0.99973 X 7488793 c.*13+5A>G splice and intron WBGene00001637 gly-12 GLYcosylation related same as above -0.05 0.03811 0.02 0.96093 X 7494763 c.421C>T p.Pro141Ser missense WBGene00018605 F48E3.4 hypothetical protein -0.05 0.01321 0.01 0.99552 X 7527415 c.*162T>A 3 prime UTR WBGene00018485 F46C8.3 0.05 0.00458 0.00 0.99585 X 7588006 n.147C>T splice and WBGene00196948 F08C6.11 ncR 0.03 0.02732 0.02 0.67648 non-coding transcript exon X 7599923 c.*442G>A 3 prime UTR WBGene00006671 twk-17 potassium ion transmembrane transport; -0.06 0.00001 0.04 0.34109 stabilization of membrane potential X 7599923 c.*990G>A 3 prime UTR WBGene00006671 twk-17 same as above -0.06 0.00001 0.04 0.34109 X 7602754 c.771G>A p.Met257Ile missense WBGene00006671 twk-17 TWiK family of potassium same as above 0.04 0.01477 0.01 0.88464 channels X 7602754 c.750G>A p.Met250Ile missense WBGene00006671 twk-17 TWiK family of potassium same as above 0.04 0.01477 0.01 0.88464 channels X 7602754 c.942G>A p.Met314Ile missense WBGene00006671 twk-17 TWiK family of potassium same as above 0.04 0.01477 0.01 0.88464 channels X 7656915 c.50G>T p.Cys17Phe missense WBGene00206475 F27D9.12 hypothetical protein -0.04 0.01045 0.01 0.98962 X 7670495 c.175A>G p.Met59Val missense and WBGene00017865 F27D9.7 hypothetical protein -0.04 0.00038 0.01 0.98890 splice X 7725375 c.*327T>G 3 prime UTR WBGene00044698 K09F5.6 0.04 0.02511 0.00 0.99973 X 7734121 c.751C>T p.Leu251Phe missense WBGene00019584 set-12 Histone-lysine N- -0.03 0.02447 0.02 0.79554 methyltransferase X 7734460 c.659+5G>A splice and intron WBGene00019584 set-12 Histone-lysine N- -0.05 0.00314 0.01 0.97539 methyltransferase X 7734822 c.302T>C p.Leu101Pro missense WBGene00019584 set-12 Histone-lysine N- 0.04 0.00758 -0.01 0.96603 methyltransferase X 7740836 c.880-7T>A splice and intron WBGene00019582 K09F5.1 hypothetical protein 0.05 0.00014 0.01 0.95628 X 7766803 c.1349A>C p.Glu450Ala missense and WBGene00000950 deg-1 Degenerin deg-1 response to acidic pH; response to amino -0.04 0.00737 0.02 0.70496 splice acid X 7792835 c.131-3T>C splice and intron WBGene00022668 ZK154.6 hypothetical protein 0.04 0.01112 0.00 0.98816 Continued ... Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 X 7798048 c.146-4T>G splice and intron WBGene00000075 adm-4 ADAM (disintegrin plus cell fate specification; membrane protein 0.04 0.00493 -0.00 0.99973 metalloprotease) family ectodomain proteolysis; Notch signaling pathway X 7799410 c.316T>A p.Ter106Lysext*? stop lost WBGene00019846 gpx-7 Glutathione peroxidase response to oxidative stress 0.04 0.00853 -0.00 0.99552 X 7807241 c.220T>A p.Ser74Thr missense WBGene00019847 R03G5.6 hypothetical protein 0.05 0.00007 -0.01 0.84180 X 7807253 c.231A>T p.Ter77Cysext*? stop lost and WBGene00019847 R03G5.6 hypothetical protein 0.06 0.00000 -0.01 0.82118 splice X 7807253 c.214-6A>T splice and intron WBGene00019847 R03G5.6 hypothetical protein 0.06 0.00000 -0.01 0.82118 X 7808749 c.123A>C p.Gln41His missense WBGene00019847 R03G5.6 hypothetical protein -0.05 0.00502 0.01 0.98824 X 7834095 c.-60C>A 5 prime UTR WBGene00006310 sul-3 metabolic process 0.05 0.02720 0.00 0.99590 X 7834135 c.-100C>T 5 prime UTR WBGene00006310 sul-3 same as above -0.05 0.00095 0.00 0.99973 X 7838877 c.-60C>A 5 prime UTR WBGene00016916 C54D2.2 -0.04 0.02873 0.00 0.99973 X 7853350 c.3025C>A p.Leu1009Ile missense WBGene00000367 cca-1 Calcium Channel, Alpha membrane depolarization; positive regu- -0.05 0.01268 0.03 0.67800 subunit lation of action potential; regulation of pharyngeal pumping X 7853350 c.3148C>A p.Leu1050Ile missense WBGene00000367 cca-1 Calcium Channel, Alpha same as above -0.05 0.01268 0.03 0.67800 subunit X 7853350 c.3004C>A p.Leu1002Ile missense WBGene00000367 cca-1 Calcium Channel, Alpha same as above -0.05 0.01268 0.03 0.67800 subunit X 7880830 c.-156C>A 5 prime UTR WBGene00016535 C39D10.8 0.05 0.03172 0.00 0.99459 X 7884339 c.-30T>C 5 prime UTR WBGene00016531 C39D10.3 biosynthetic process 0.04 0.01182 0.01 0.97137 X 7884339 c.-30T>C 5 prime UTR WBGene00016531 C39D10.3 same as above 0.04 0.01182 0.01 0.97137 premature start codon gain X 7885535 c.79-1G>T splice acceptor WBGene00016531 C39D10.3 hypothetical protein same as above 0.05 0.01701 -0.00 0.99888 and intron X 7885535 c.523-1G>T splice acceptor WBGene00016531 C39D10.3 hypothetical protein same as above 0.05 0.01701 -0.00 0.99888 and intron X 7887307 c.573-3C>A splice and intron WBGene00016531 C39D10.3 hypothetical protein same as above -0.03 0.04960 0.01 0.97391 X 7887307 c.1017-3C>A splice and intron WBGene00016531 C39D10.3 hypothetical protein same as above -0.03 0.04960 0.01 0.97391 X 7887315 c.1022C>G p.Ala341Gly missense WBGene00016531 C39D10.3 hypothetical protein same as above 0.05 0.00102 0.00 0.99958 X 7887315 c.578C>G p.Ala193Gly missense WBGene00016531 C39D10.3 hypothetical protein same as above 0.05 0.00102 0.00 0.99958 X 7931050 c.208A>T p.Thr70Ser missense WBGene00006980 zig-3 2 (Zwei) IG domain protein 0.05 0.02275 0.00 0.99715 X 7943699 c.757C>T p.Pro253Ser missense WBGene00006588 tnt-3 TropoNin T regulation of muscle contraction -0.04 0.00079 -0.00 0.99986 X 7961582 c.81T>G p.Val27Val splice and syn- WBGene00004774 sem-5 Sex muscle abnormal protein cell differentiation; cell migration; in- -0.04 0.01852 0.01 0.96745 onymous 5 nate immune response; male genitalia development; muscle organ development; nematode larval development; peptidyl- tyrosine autophosphorylation; Ras protein signal transduction; regulation of cell projection organization; regulation of cell proliferation; regulation of vulval development; transmembrane receptor protein tyrosine kinase signaling pathway X 7990174 c.703T>G p.Phe235Val missense WBGene00018467 sdpn-1 SynDaPiN (synaptic dy- endocytic recycling; regulation of endo- 0.03 0.00640 0.01 0.97241 namin binding protein) cytosis homolog X 7990174 c.721T>G p.Phe241Val missense WBGene00018467 sdpn-1 SynDaPiN (synaptic dy- same as above 0.03 0.00640 0.01 0.97241 namin binding protein) homolog X 8159941 c.*64T>C 3 prime UTR WBGene00001854 hil-3 nucleosome assembly -0.05 0.01228 0.02 0.95310 X 8170257 c.269C>T p.Ala90Val missense WBGene00015922 C17H11.2 hypothetical protein 0.04 0.01744 0.01 0.97476 Continued ... Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 X 8183149 c.441C>A p.Asn147Lys missense WBGene00015925 C17H11.5 hypothetical protein 0.05 0.00215 0.01 0.98995 X 8185559 c.*78C>T 3 prime UTR WBGene00015926 C17H11.6 positive regulation of proteasomal -0.04 0.03084 -0.00 0.99795 ubiquitin-dependent protein catabolic process; protein polyubiquitination; protein ubiquitination involved in ubiquitin-dependent protein catabolic process X 8185573 c.*64T>C 3 prime UTR WBGene00015926 C17H11.6 same as above -0.05 0.01194 0.00 0.99953 X 8192539 c.252+7C>T splice and intron WBGene00015926 C17H11.6 hypothetical protein same as above -0.04 0.00407 0.01 0.96466 X 8192539 c.342+7C>T splice and intron WBGene00015926 C17H11.6 hypothetical protein same as above -0.04 0.00407 0.01 0.96466 X 8192539 c.687+7C>T splice and intron WBGene00015926 C17H11.6 hypothetical protein same as above -0.04 0.00407 0.01 0.96466 X 8215381 c.208T>A p.Tyr70Asn missense WBGene00016738 C47D2.1 hypothetical protein -0.05 0.01339 0.00 0.99776 X 8232975 c.-5G>A 5 prime UTR WBGene00019780 M60.4 hypothetical protein membrane raft polarization; protein lo- -0.05 0.01579 0.03 0.76347 calization X 8232975 c.69-4G>A splice and intron WBGene00019780 M60.4 hypothetical protein same as above -0.05 0.01579 0.03 0.76347 X 8247145 c.1273T>G p.Leu425Val missense WBGene00019779 M60.2 hypothetical protein defense response to Gram-negative bac- 0.04 0.01790 0.01 0.98663 terium; innate immune response X 8252290 c.-36T>C 5 prime UTR WBGene00019781 M60.6 -0.05 0.01983 0.04 0.47715 X 8265536 c.695C>T p.Ala232Val missense WBGene00017421 cutl-29 CUTiclin-Like 0.04 0.00515 0.01 0.91354 X 8294103 c.4831T>C p.Ser1611Pro missense WBGene00017419 F13B9.1 hypothetical protein COPII vesicle coating; protein transport -0.05 0.03793 -0.02 0.95659 X 8294103 c.4885T>C p.Ser1629Pro missense WBGene00017419 F13B9.1 hypothetical protein same as above -0.05 0.03793 -0.02 0.95659 X 8294103 c.4816T>C p.Ser1606Pro missense WBGene00017419 F13B9.1 hypothetical protein same as above -0.05 0.03793 -0.02 0.95659 X 8294176 c.*59T>G 3 prime UTR WBGene00017419 F13B9.1 same as above -0.05 0.03321 0.01 0.99428 X 8299183 c.233C>T p.Ser78Leu missense WBGene00000427 ced-13 hypothetical protein intrinsic apoptotic signaling pathway in -0.04 0.01782 0.02 0.88972 response to DNA damage by p53 class mediator; positive regulation of apoptotic process X 8306330 c.*142T>C 3 prime UTR WBGene00019988 R09F10.5 -0.05 0.04635 0.00 0.99705 X 8318691 c.262G>A p.Asp88Asn missense WBGene00005237 srh-11 Serpentine Receptor, class H detection of chemical stimulus involved in -0.04 0.00771 0.01 0.96847 sensory perception X 8318699 c.254G>T p.Trp85Leu missense WBGene00005237 srh-11 Serpentine Receptor, class H same as above -0.05 0.00035 0.01 0.94707 X 8319040 c.11G>A p.Arg4Lys missense WBGene00005237 srh-11 Serpentine Receptor, class H same as above -0.05 0.00483 0.03 0.78890 X 8325111 c.*118C>A 3 prime UTR WBGene00019989 R09F10.8 0.04 0.02375 0.01 0.98179 X 8336809 c.403C>T p.Leu135Phe missense WBGene00018884 F55E10.5 hypothetical protein -0.05 0.00660 0.02 0.85731 X 8342216 c.242T>C p.Phe81Ser missense WBGene00018881 F55E10.1 hypothetical protein -0.05 0.00379 0.02 0.86334 X 8350352 c.496T>A p.Leu166Met missense WBGene00018886 npr-28 NeuroPeptide Receptor fam- -0.06 0.00070 0.02 0.94180 ily X 8547300 c.*558T>C 3 prime UTR WBGene00017048 D2021.4 hypothetical protein acyl-CoA metabolic process -0.05 0.02183 0.01 0.99586 X 8547495 c.*363G>C 3 prime UTR WBGene00017048 D2021.4 hypothetical protein same as above -0.05 0.01153 0.01 0.98833 X 8563182 c.*309G>A 3 prime UTR WBGene00017046 utx-1 histone H3-K27 demethylation -0.05 0.03918 -0.00 0.99748 X 8583169 c.652G>A p.Asp218Asn missense WBGene00017570 F18E9.4 hypothetical protein -0.05 0.00425 -0.01 0.99459 X 8595973 c.937A>G p.Thr313Ala missense WBGene00017573 F18E9.7 hypothetical protein -0.06 0.01727 0.02 0.92952 X 8735563 c.865A>T p.Asn289Tyr missense WBGene00019729 M02D8.3 hypothetical protein -0.05 0.02909 0.01 0.99687 X 8735577 c.858-7G>A splice and intron WBGene00019729 M02D8.3 hypothetical protein 0.04 0.02065 -0.02 0.80759 X 8735578 c.858-8T>A splice and intron WBGene00019729 M02D8.3 hypothetical protein 0.03 0.04809 -0.01 0.85393 X 8736702 c.224A>G p.Lys75Arg missense WBGene00019729 M02D8.3 hypothetical protein 0.04 0.02266 -0.01 0.94014 X 8748823 c.1538C>T p.Ala513Val missense WBGene00019730 asns-2 ASparagiNe Synthetase asparagine biosynthetic process; glu- 0.04 0.00096 -0.00 0.99459 tamine metabolic process X 8748852 c.*107C>T 3 prime UTR WBGene00019730 asns-2 ASparagiNe Synthetase same as above -0.05 0.03840 -0.00 0.99973 X 8759976 c.728A>G p.Gln243Arg missense WBGene00019731 M02D8.5 hypothetical protein -0.06 0.00034 0.01 0.97365 X 8787066 c.*267A>T 3 prime UTR WBGene00022810 ZK721.3 0.04 0.01264 -0.02 0.82516 Continued ... Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 X 8795839 c.2271G>A p.Ter757Ter stop retained WBGene00006477 chup-1 CHolesterol UPtake associ- cholesterol import; dsRNA transport -0.05 0.03129 0.01 0.99428 ated X 8802207 c.*452G>A 3 prime UTR WBGene00019871 R04E5.8 -0.06 0.00215 0.01 0.99084 X 8802207 c.*145G>A 3 prime UTR WBGene00019871 R04E5.8 -0.06 0.00215 0.01 0.99084 X 8821174 c.*340G>C 3 prime UTR WBGene00002057 ifd-1 Intermediate filament pro- 0.04 0.00433 -0.02 0.62104 tein ifd-1 X 8821174 c.1569G>C p.Glu523Asp missense WBGene00002057 ifd-1 Intermediate filament pro- 0.04 0.00433 -0.02 0.62104 tein ifd-1 X 8831964 c.2350A>G p.Ile784Val missense WBGene00016188 sec-15 Exocyst complex component protein transport; vesicle docking in- 0.03 0.00007 -0.02 0.28150 6 volved in exocytosis 3. Change-of-function mutations on chromosome X, 15.9-16.3 Mb, significant selection coefficient from transfer 1 to 12

Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 X 15969015 c.820A>G p.Ile274Val missense WBGene00004103 pqn-11 ncR 0.03 0.04996 0.00 0.99459 X 15971827 c.429G>T p.Leu143Phe missense WBGene00004103 pqn-11 Prion-like-(Q/N-rich)- -0.01 0.03531 0.00 0.99687 domain-bearing protein X 15979621 c.2564C>T p.Pro855Leu missense WBGene00007484 C09G1.2 ncR -0.02 0.03610 0.00 0.98995 X 15981604 c.581A>T p.Lys194Met missense WBGene00007484 C09G1.2 ncR -0.03 0.01104 0.00 0.99545 X 15994436 n.222T>A splice and WBGene00196731 C09G1.6 ncR -0.03 0.01898 0.00 0.99973 non-coding transcript exon X 16051594 c.502C>T p.His168Tyr missense WBGene00012073 cpd-2 ncR peptide metabolic process; protein pro- -0.04 0.02301 cessing; regulation of muscle contraction X 16059044 c.-53C>A 5 prime UTR WBGene00012074 T27A8.2 ncR -0.05 0.00624 X 16067094 c.269A>G p.Asp90Gly missense WBGene00012076 T27A8.4 ncR -0.06 0.00023 -0.01 0.97795 X 16103664 c.-32T>C 5 prime UTR WBGene00014214 ZK1073.2 -0.05 0.00274 -0.02 0.46500 X 16103673 c.-23C>T 5 prime UTR WBGene00014214 ZK1073.2 -0.05 0.01818 0.00 0.74960 premature start codon gain X 16103673 c.-23C>T 5 prime UTR WBGene00014214 ZK1073.2 -0.05 0.01818 0.00 0.74960 X 16124032 c.*367C>T 3 prime UTR WBGene00014213 ZK1073.1 -0.05 0.00409 -0.01 0.47286 X 16124032 c.*282G>A 3 prime UTR WBGene00014214 ZK1073.2 -0.05 0.00409 -0.01 0.47286 X 16124271 c.*128T>A 3 prime UTR WBGene00014213 ZK1073.1 -0.06 0.00030 X 16124271 c.*521A>T 3 prime UTR WBGene00014214 ZK1073.2 -0.06 0.00030 X 16142052 c.2135+3T>G splice and intron WBGene00008622 F09C8.2 hypothetical protein -0.06 0.00000 0.00 0.78889 X 16146633 c.66-3T>C splice and intron WBGene00008622 F09C8.2 hypothetical protein -0.03 0.00319 X 16185156 c.*238C>T 3 prime UTR WBGene00011227 R11.2 -0.04 0.01354 X 16191558 c.273T>A p.His91Gln missense WBGene00011226 R11.1 SLC (SoLute Carrier) ho- dicarboxylic acid transport; mitochon- -0.05 0.01364 0.00 0.75199 molog drial transport X 16191583 c.294+4A>C splice and intron WBGene00011226 R11.1 SLC (SoLute Carrier) ho- same as above -0.05 0.00330 0.00 0.56556 molog X 16197540 c.1013-6C>T splice and intron WBGene00011228 R11.3 hypothetical protein 0.03 0.04868 0.00 0.99974 X 16199053 c.271C>G p.Leu91Val missense WBGene00011228 R11.3 hypothetical protein -0.05 0.00011 0.00 0.37845 X 16212676 c.71A>T p.Lys24Met missense WBGene00009069 F23A7.4 hypothetical protein -0.05 0.00002 X 16221092 c.260G>A p.Arg87His missense WBGene00009068 F23A7.3 hypothetical protein -0.06 0.00000 Continued ... Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 X 16280759 c.2512G>A p.Asp838Asn missense WBGene00004745 sdc-1 Zinc finger protein sdc-1 cell differentiation; dosage compensa- -0.04 0.00000 tion by hypoactivation of X chromosome; multicellular organism development; negative regulation of transcription from RNA polymerase II promoter; positive regulation of histone H3-K4 methylation; sex determination; sex differentiation; transcription, DNA-templated

4. Change-of-function mutations on chromosome II, 9.8-12.5 Mb, signiﬁcant selection coeﬃcient from transfer 12 to 22

Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22

II 10814323 c.3402-7T>A splice and intron WBGene00011071 R06F6.8 Guanine nucleotide ex- intracellular protein transport; negative -0.01 0.81050 -0.02 0.04733 change factor subunit regulation of cellular protein catabolic R06F6.8 process; positive regulation of GTPase activity; retrograde transport, endosome to Golgi

II 10814323 c.3396-7T>A splice and intron WBGene00011071 R06F6.8 Guanine nucleotide ex- same as above -0.01 0.81050 -0.02 0.04733 change factor subunit R06F6.8

II 11174932 c.454A>C p.Met152Leu missense WBGene00009511 F37H8.2 hypothetical protein 0.01 0.63497 0.03 0.02422

II 11593165 c.1663G>A p.Asp555Asn missense WBGene00008546 gfat-1 Glutamine-Fructose 6- carbohydrate derivative biosynthetic pro- -0.02 0.22732 -0.04 0.04272 phosphate AminoTrans- cess ferase homolog

II 11593165 c.1624G>A p.Asp542Asn missense WBGene00008546 gfat-1 Glutamine-Fructose 6- same as above -0.02 0.22732 -0.04 0.04272 phosphate AminoTrans- ferase homolog

II 11679148 c.*86G>A 3 prime UTR WBGene00008136 C47D12.2 Golgi organization -0.02 0.46626 -0.02 0.00043

II 11679148 c.*53C>T 3 prime UTR WBGene00008137 sfxn-1.4 -0.02 0.46626 -0.02 0.00043

II 11781595 c.2827G>A p.Ala943Thr missense WBGene00001016 dna-2 yeast D heli- DNA metabolic process; DNA replica- -0.00 0.90720 -0.06 0.00392 case/endonuclease family tion, Okazaki fragment processing

II 11781595 c.2719G>A p.Ala907Thr missense WBGene00001016 dna-2 yeast D heli- same as above -0.00 0.90720 -0.06 0.00392 case/endonuclease family

II 11782390 c.88C>T p.Pro30Ser missense and WBGene00219294 F43G6.16 hypothetical protein -0.03 0.08920 -0.06 0.00880 splice

II 13513524 c.2896A>G p.Thr966Ala missense WBGene00010070 nep-17 NEPrilysin metallopeptidase -0.02 0.42250 -0.05 0.03522 family

II 13513524 c.2509A>G p.Thr837Ala missense WBGene00010070 nep-17 NEPrilysin metallopeptidase -0.02 0.42250 -0.05 0.03522 family Continued ... Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22

II 13513537 c.2522A>C p.Asp841Ala missense WBGene00010070 nep-17 NEPrilysin metallopeptidase -0.01 0.44484 -0.05 0.01283 family

II 13513537 c.2909A>C p.Asp970Ala missense WBGene00010070 nep-17 NEPrilysin metallopeptidase -0.01 0.44484 -0.05 0.01283 family

II 13513545 c.2917A>G p.Thr973Ala missense WBGene00010070 nep-17 NEPrilysin metallopeptidase -0.02 0.43958 -0.05 0.02734 family

II 13513545 c.2530A>G p.Thr844Ala missense WBGene00010070 nep-17 NEPrilysin metallopeptidase -0.02 0.43958 -0.05 0.02734 family

II 13882420 c.*156A>T 3 prime UTR WBGene00013095 ing-3 ncR covalent chromatin modiﬁcation 0.02 0.01709 -0.03 0.04310

5. Change-of-function mutations on chromosome III, 8-10.5 Mb, signiﬁcant selection coeﬃcient from transfer 12 to 22

Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22 III 8497095 c.682C>A p.Arg228Ser missense WBGene00015418 pac-1 GTPase-activating protein signal transduction -0.02 0.17464 -0.04 0.00390 pac-1 III 8497095 c.340C>A p.Arg114Ser missense WBGene00015418 pac-1 GTPase-activating protein same as above -0.02 0.17464 -0.04 0.00390 pac-1 III 8725354 c.*239G>A 3 prime UTR WBGene00022718 ZK370.4 developmental process; lipid catabolic -0.04 0.00202 -0.03 0.00378 process; phosphatidylcholine metabolic process III 8765447 c.760G>A p.Val254Ile missense WBGene00003253 mig-22 Chondroitin sulfate synthase -0.03 0.08715 -0.06 0.02338 mig-22 III 8765447 c.1354G>A p.Val452Ile missense WBGene00003253 mig-22 Chondroitin sulfate synthase -0.03 0.08715 -0.06 0.02338 mig-22 III 8913237 c.581A>G p.Lys194Arg missense WBGene00014027 tpk-1 Thiamin pyrophosphokinase thiamine diphosphate biosynthetic pro- -0.04 0.00199 -0.02 0.02734 1 cess; thiamine metabolic process III 8913237 c.536A>G p.Lys179Arg missense WBGene00014027 tpk-1 Thiamin pyrophosphokinase same as above -0.04 0.00199 -0.02 0.02734 1 III 9236250 c.63+3A>G splice and intron WBGene00011962 T23G5.2 CRAL-TRIO domain- -0.05 0.00028 -0.02 0.04475 containing protein T23G5.2 III 10052980 c.535C>A p.Arg179Ser missense WBGene00011804 T16G12.3 hypothetical protein -0.04 0.00711 -0.06 0.01148

6. Change-of-function mutations on chromosome X, 9-10 Mb, signiﬁcant selection coeﬃcient from transfer 12 to 22

Chrom Pos Substitution AA.change Consequence Wormbase Gene Gene.name GO.BP s1−12 q.val1−12 s12−22 q.val12−22

X 9896109 c.546+5C>T splice and intron WBGene00009024 F21G4.3 hypothetical protein 0.00 0.99169 0.04 0.03299