/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Axis_porcinus-ASM379854v1_HiC.fasta --ambiguous=iupac --format=maf > Axis_porcinus-ASM379854v1_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Aquila_chrysaetos-1.0.2_HiC.fasta --ambiguous=iupac --format=maf > Aquila_chrysaetos-1.0.2_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Alligator_sinensis-ASM45574v1_HiC.fasta --ambiguous=iupac --format=maf > Alligator_sinensis-ASM45574v1_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Alligator_mississippiensis-ASM28112v4_HiC.fasta --ambiguous=iupac --format=maf > Alligator_mississippiensis-ASM28112v4_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Orcinus_orca-Oorc_1.1_HiC.fasta --ambiguous=iupac --format=maf > Orcinus_orca-Oorc_1.1_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Bison_bison-Bison_UMD1.0_HiC.fasta --ambiguous=iupac --format=maf > Bison_bison-Bison_UMD1.0_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Camelus_dromedarius-PRJNA234474_Ca_dromedarius_V1.0_HiC.fasta --ambiguous=iupac --format=maf > Camelus_dromedarius-PRJNA234474_Ca_dromedarius_V1.0_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Canis_lupus_dingo-ASM325472v1_HiC.fasta --ambiguous=iupac --format=maf > Canis_lupus_dingo-ASM325472v1_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Canis_lupus_familiaris-canFamDis_HiC.fasta --ambiguous=iupac --format=maf > Canis_lupus_familiaris-canFamDis_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Castor_canadensis-C.can_genome_v1.0_HiC.fasta --ambiguous=iupac --format=maf > Castor_canadensis-C.can_genome_v1.0_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Cavia_porcellus-Cavpor3.0_HiC.fasta --ambiguous=iupac --format=maf > Cavia_porcellus-Cavpor3.0_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Ceratotherium_simum-CerSimSim1.0_HiC.fasta --ambiguous=iupac --format=maf > Ceratotherium_simum-CerSimSim1.0_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Chelonia_mydas-CheMyd_1.0_HiC.fasta --ambiguous=iupac --format=maf > Chelonia_mydas-CheMyd_1.0_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Chinchilla_x-ChiLan1.0_HiC.fasta --ambiguous=iupac --format=maf > Chinchilla_x-ChiLan1.0_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Choloepus_hoffmanni-C_hoffmanni-2.0.1_HiC.fasta --ambiguous=iupac --format=maf > Choloepus_hoffmanni-C_hoffmanni-2.0.1_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Didelphis_virginiana-dv-2k.fasta --ambiguous=iupac --format=maf > Didelphis_virginiana-dv-2k.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Eidolon_helvum-ASM46528v1_HiC.fasta --ambiguous=iupac --format=maf > Eidolon_helvum-ASM46528v1_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Enhydra_lutris-ASM228890v2_HiC.fasta --ambiguous=iupac --format=maf > Enhydra_lutris-ASM228890v2_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Equus_asinus-ASM303372v1_HiC.fasta --ambiguous=iupac --format=maf > Equus_asinus-ASM303372v1_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Delphinapterus_leucas-ASM228892v2_HiC.fasta --ambiguous=iupac --format=maf > Delphinapterus_leucas-ASM228892v2_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Fukomys_damarensis-DMR_v1.0_HiC.fasta --ambiguous=iupac --format=maf > Fukomys_damarensis-DMR_v1.0_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Giraffa_camelopardalis-ASM165123v1_HiC.fasta --ambiguous=iupac --format=maf > Giraffa_camelopardalis-ASM165123v1_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Lagenorhynchus_obliquidens-ASM367639v1_HiC.fasta --ambiguous=iupac --format=maf > Lagenorhynchus_obliquidens-ASM367639v1_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Lycaon_pictus-sis2-181106_HiC.fasta --ambiguous=iupac --format=maf > Lycaon_pictus-sis2-181106_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Mesocricetus_auratus-MesAur1.0_HiC.fasta --ambiguous=iupac --format=maf > Mesocricetus_auratus-MesAur1.0_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Macropus_rufus-mr-2k.fasta --ambiguous=iupac --format=maf > Macropus_rufus-mr-2k.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Macropus_giganteus-mg-2k.fasta --ambiguous=iupac --format=maf > Macropus_giganteus-mg-2k.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Macropus_fuliginosus-mf-2k.fasta --ambiguous=iupac --format=maf > Macropus_fuliginosus-mf-2k.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Macropus_eugenii-me-1k.fasta --ambiguous=iupac --format=maf > Macropus_eugenii-me-1k.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Microcebus_murinus-Mmur_3.0_HiC.fasta --ambiguous=iupac --format=maf > Microcebus_murinus-Mmur_3.0_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Monodelphis_domestica-MonDom5_HiC.fasta --ambiguous=iupac --format=maf > Monodelphis_domestica-MonDom5_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Mustela_putorius_furo-MusPutFur1.0_HiC.fasta --ambiguous=iupac --format=maf > Mustela_putorius_furo-MusPutFur1.0_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Odobenus_rosmarus-Oros_1.0_HiC.fasta --ambiguous=iupac --format=maf > Odobenus_rosmarus-Oros_1.0_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Odocoileus_virginianus-Ovir.te_1.0_HiC.fasta --ambiguous=iupac --format=maf > Odocoileus_virginianus-Ovir.te_1.0_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Panthera_pardus-PanPar1.0_HiC.fasta --ambiguous=iupac --format=maf > Panthera_pardus-PanPar1.0_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Oryctolagus_cuniculus-OryCun2.0_HiC.fasta --ambiguous=iupac --format=maf > Oryctolagus_cuniculus-OryCun2.0_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Orycteropus_afer-OryAfe1.0_HiC.fasta --ambiguous=iupac --format=maf > Orycteropus_afer-OryAfe1.0_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Okapia_johnstoni-ASM166083v1_HiC.fasta --ambiguous=iupac --format=maf > Okapia_johnstoni-ASM166083v1_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Panthera_tigris-PanTig1.0_HiC.fasta --ambiguous=iupac --format=maf > Panthera_tigris-PanTig1.0_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Patagioenas_fasciata-NIATT_ARIZONA_HiC.fasta --ambiguous=iupac --format=maf > Patagioenas_fasciata-NIATT_ARIZONA_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Phalanger_gymnotis-pg-2k.fasta --ambiguous=iupac --format=maf > Phalanger_gymnotis-pg-2k.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Acinonyx_jubatus-aciJub1_HiC.fasta --ambiguous=iupac --format=maf > Acinonyx_jubatus-aciJub1_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Ailurus_fulgens-ASM200746v1_HiC.fasta --ambiguous=iupac --format=maf > Ailurus_fulgens-ASM200746v1_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Ursus_arctos-ASM358476v1_HiC.fasta --ambiguous=iupac --format=maf > Ursus_arctos-ASM358476v1_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Procavia_capensis-Pcap_2.0_HiC.fasta --ambiguous=iupac --format=maf > Procavia_capensis-Pcap_2.0_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Procyon_lotor-pl-1k.fasta --ambiguous=iupac --format=maf > Procyon_lotor-pl-1k.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Propithecus_coquereli-Pcoq_1.0_HiC.fasta --ambiguous=iupac --format=maf > Propithecus_coquereli-Pcoq_1.0_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Pteropus_vampyrus-Pvam_2.0_HiC.fasta --ambiguous=iupac --format=maf > Pteropus_vampyrus-Pvam_2.0_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Puma_concolor-PumCon1.0_HiC.fasta --ambiguous=iupac --format=maf > Puma_concolor-PumCon1.0_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Suricata_suricatta-meerkat_22Aug2017_6uvM2_HiC.fasta --ambiguous=iupac --format=maf > Suricata_suricatta-meerkat_22Aug2017_6uvM2_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Salvator_merianae-HLtupMer6_HiC.fasta --ambiguous=iupac --format=maf > Salvator_merianae-HLtupMer6_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Saimiri_boliviensis-saiBolDis_HiC.fasta --ambiguous=iupac --format=maf > Saimiri_boliviensis-saiBolDis_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Python_bivittatus-Python_molurus_bivittatus-5.0.2_HiC.fasta --ambiguous=iupac --format=maf > Python_bivittatus-Python_molurus_bivittatus-5.0.2_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Pygocentrus_nattereri-Pygocentrus_nattereri-1.0.2_HiC.fasta --ambiguous=iupac --format=maf > Pygocentrus_nattereri-Pygocentrus_nattereri-1.0.2_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Trichechus_manatus-TriManLat1.0_HiC.fasta --ambiguous=iupac --format=maf > Trichechus_manatus-TriManLat1.0_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Tursiops_aduncus-ASM322739v1_HiC.fasta --ambiguous=iupac --format=maf > Tursiops_aduncus-ASM322739v1_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Tursiops_truncatus-NIST_Tur_tru_v1_HiC.fasta --ambiguous=iupac --format=maf > Tursiops_truncatus-NIST_Tur_tru_v1_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Tympanuchus_cupido-T_cupido_pinnatus_GPC_3440_v1_HiC.fasta --ambiguous=iupac --format=maf > Tympanuchus_cupido-T_cupido_pinnatus_GPC_3440_v1_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Ursus_americanus-ASM334442v1_HiC.fasta --ambiguous=iupac --format=maf > Ursus_americanus-ASM334442v1_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Vombatus_ursinus-vu-2k.fasta --ambiguous=iupac --format=maf > Vombatus_ursinus-vu-2k.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Vicugna_pacos-Vicugna_pacos-2.0.1_HiC.fasta --ambiguous=iupac --format=maf > Vicugna_pacos-Vicugna_pacos-2.0.1_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Ursus_maritimus-UrsMar_1.0_HiC.fasta --ambiguous=iupac --format=maf > Ursus_maritimus-UrsMar_1.0_HiC.hg38.maf
/oak/stanford/groups/akundaje/marinovg/programs/lastz-1.04.00-32/bin/lastz_32 /oak/stanford/groups/akundaje/marinovg/genomes/hg20/sequence/hg38.fa[multiple] Vulpes_vulpes-VulVul2.2_HiC.fasta --ambiguous=iupac --format=maf > Vulpes_vulpes-VulVul2.2_HiC.hg38.maf