OUTPUT=output
NUCDB=db/benchmark.nt
PROTDB=db/benchmark.aa
# Uncomment the two lines below if a larger data set is desired
#NUCDB=db/nt.01
#PROTDB=db/nr.01
BLASTN=blastn -task blastn -use_index false
BLASTP=blastp
BLASTX=blastx
TBLASTN=tblastn
TBLASTX=tblastx
MEGABLAST=blastn -task megablast -use_index false
IDX_MEGABLAST=blastn -task megablast -use_index true 
MAKEMBINDEX=makembindex -iformat blastdb -old_style_index false
QUERY_OPT=-query
BLASTN_OPTS=
BLASTP_OPTS=
BLASTX_OPTS=
TBLASTN_OPTS=
TBLASTX_OPTS=
MEGABLAST_OPTS=
TIME=/usr/bin/time -p

all: tblastx tblastn blastx blastn blastp megablast idx_megablast

clean:
	find output -type f | xargs rm -f

cleanest: clean
	find db -type f \( -name "*.idx" -o -name "*.shd" \) | xargs rm -f

archive: cleanest
	(cd ..; tar zcf benchmark2013.tar.gz benchmark)

blastn: NM_001005648 NM_001006971 NM_001007465 NM_001007895 NM_003949 NM_005016 NM_005270 NM_005336 NM_006941 NM_010585 NM_013308 NM_013869 NM_018073 NM_022264 NM_024506 NM_026175 NM_027896 NM_029688 NM_057148 NM_058728 NM_062161 NM_063696 NM_065322 NM_066634 NM_068205 NM_069918 NM_070743 NM_072233 NM_073126 NM_074489 NM_078454 NM_100382 NM_100835 NM_101682 NM_103126 NM_105054 NM_111683 NM_112516 NM_113172 NM_114184 NM_119522 NM_121516 NM_123063 NM_123974 NM_125747 NM_128200 NM_129081 NM_129947 NM_130992 NM_131948 NM_137396 NM_139215 NM_140971 NM_141653 NM_143027 NM_148416 NM_148929 NM_153450 NM_165592 NM_165778 NM_172544 NM_173579 NM_177947 NM_178660 NM_181804 NM_199062 NM_199917 NM_200637 NM_201154 NM_201544 NM_204556 NM_204856 NM_206511 NM_208786 NM_209353 NM_210903 NM_212511 NM_212927 NR_001849 XM_127602 XM_292700 XM_380977 XM_381615 XM_383032 XM_383923 XM_386257 XM_386298 XM_388447 XM_389205 XM_390593 XM_496429 XM_496701 XM_496943 XM_498223 XM_499196 XM_537059 XM_541461 XM_544537 XM_546594 XM_547606 

megablast: NM_001000841 NM_001008511 NM_007622 NM_020327 NM_032130 NM_064997 NM_071881 NM_078614 NM_105954 NM_118167 NM_127277 NM_134656 NM_146415 NM_167127 NM_180448 NM_201405 NM_207059 NM_214357 XM_381431 XM_386832 NG_000006 NG_007385 NG_008929 NG_008953

$(NUCDB).shd:
	$(MAKEMBINDEX) -input $(NUCDB)

idx_megablast: $(NUCDB).shd IDX_NM_001000841 IDX_NM_001008511 IDX_NM_007622 IDX_NM_020327 IDX_NM_032130 IDX_NM_064997 IDX_NM_071881 IDX_NM_078614 IDX_NM_105954 IDX_NM_118167 IDX_NM_127277 IDX_NM_134656 IDX_NM_146415 IDX_NM_167127 IDX_NM_180448 IDX_NM_201405 IDX_NM_207059 IDX_NM_214357 IDX_XM_381431 IDX_XM_386832 IDX_NG_000006 IDX_NG_007385 IDX_NG_008929 IDX_NG_008953

tblastn: NP_072902 NP_308279 NP_566058 NP_693502 NP_794869 NP_920819 NP_977725 YP_022238 YP_091579 YP_147155 

tblastx: NM_001003472 NM_011324 NM_060094 NM_074531 NM_116017 NM_133357 NM_167296 NM_202875 XM_194279 XM_391679 

blastp: NP_085504 NP_174344 NP_214548 NP_245243 NP_308413 NP_345015 NP_349135 NP_436070 NP_566269 NP_611552 NP_633288 NP_670887 NP_706440 NP_733286 NP_781168 NP_784621 NP_818972 NP_864591 NP_872878 NP_894055 NP_931067 NP_937947 NP_952492 NP_965272 XP_237451 XP_499151 XP_610726 YP_000338 YP_054627 YP_062020 YP_069013 YP_081219 YP_121326 YP_129633 YP_137100 YP_141079 YP_182226 YP_189837 YP_209371 YP_244862 

blastx: NM_001004160 NM_004838 NM_013165 NM_025457 NM_061919 NM_069868 NM_076353 NM_104152 NM_117313 NM_126194 NM_134961 NM_147897 NM_169361 NM_198684 NM_203204 NM_209669 XM_235217 XM_384252 XM_484008 XM_536409 NG_000006b NG_007385b NG_008929b NG_008953b

NM_001005648:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_001005648 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_001005648.out 2>$(OUTPUT)/blastn/NM_001005648.err
NM_001006971:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_001006971 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_001006971.out 2>$(OUTPUT)/blastn/NM_001006971.err
NM_001007465:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_001007465 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_001007465.out 2>$(OUTPUT)/blastn/NM_001007465.err
NM_001007895:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_001007895 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_001007895.out 2>$(OUTPUT)/blastn/NM_001007895.err
NM_003949:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_003949 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_003949.out 2>$(OUTPUT)/blastn/NM_003949.err
NM_005016:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_005016 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_005016.out 2>$(OUTPUT)/blastn/NM_005016.err
NM_005270:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_005270 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_005270.out 2>$(OUTPUT)/blastn/NM_005270.err
NM_005336:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_005336 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_005336.out 2>$(OUTPUT)/blastn/NM_005336.err
NM_006941:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_006941 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_006941.out 2>$(OUTPUT)/blastn/NM_006941.err
NM_010585:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_010585 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_010585.out 2>$(OUTPUT)/blastn/NM_010585.err
NM_013308:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_013308 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_013308.out 2>$(OUTPUT)/blastn/NM_013308.err
NM_013869:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_013869 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_013869.out 2>$(OUTPUT)/blastn/NM_013869.err
NM_018073:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_018073 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_018073.out 2>$(OUTPUT)/blastn/NM_018073.err
NM_022264:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_022264 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_022264.out 2>$(OUTPUT)/blastn/NM_022264.err
NM_024506:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_024506 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_024506.out 2>$(OUTPUT)/blastn/NM_024506.err
NM_026175:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_026175 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_026175.out 2>$(OUTPUT)/blastn/NM_026175.err
NM_027896:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_027896 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_027896.out 2>$(OUTPUT)/blastn/NM_027896.err
NM_029688:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_029688 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_029688.out 2>$(OUTPUT)/blastn/NM_029688.err
NM_057148:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_057148 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_057148.out 2>$(OUTPUT)/blastn/NM_057148.err
NM_058728:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_058728 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_058728.out 2>$(OUTPUT)/blastn/NM_058728.err
NM_062161:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_062161 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_062161.out 2>$(OUTPUT)/blastn/NM_062161.err
NM_063696:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_063696 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_063696.out 2>$(OUTPUT)/blastn/NM_063696.err
NM_065322:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_065322 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_065322.out 2>$(OUTPUT)/blastn/NM_065322.err
NM_066634:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_066634 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_066634.out 2>$(OUTPUT)/blastn/NM_066634.err
NM_068205:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_068205 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_068205.out 2>$(OUTPUT)/blastn/NM_068205.err
NM_069918:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_069918 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_069918.out 2>$(OUTPUT)/blastn/NM_069918.err
NM_070743:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_070743 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_070743.out 2>$(OUTPUT)/blastn/NM_070743.err
NM_072233:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_072233 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_072233.out 2>$(OUTPUT)/blastn/NM_072233.err
NM_073126:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_073126 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_073126.out 2>$(OUTPUT)/blastn/NM_073126.err
NM_074489:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_074489 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_074489.out 2>$(OUTPUT)/blastn/NM_074489.err
NM_078454:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_078454 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_078454.out 2>$(OUTPUT)/blastn/NM_078454.err
NM_100382:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_100382 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_100382.out 2>$(OUTPUT)/blastn/NM_100382.err
NM_100835:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_100835 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_100835.out 2>$(OUTPUT)/blastn/NM_100835.err
NM_101682:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_101682 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_101682.out 2>$(OUTPUT)/blastn/NM_101682.err
NM_103126:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_103126 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_103126.out 2>$(OUTPUT)/blastn/NM_103126.err
NM_105054:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_105054 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_105054.out 2>$(OUTPUT)/blastn/NM_105054.err
NM_111683:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_111683 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_111683.out 2>$(OUTPUT)/blastn/NM_111683.err
NM_112516:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_112516 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_112516.out 2>$(OUTPUT)/blastn/NM_112516.err
NM_113172:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_113172 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_113172.out 2>$(OUTPUT)/blastn/NM_113172.err
NM_114184:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_114184 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_114184.out 2>$(OUTPUT)/blastn/NM_114184.err
NM_119522:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_119522 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_119522.out 2>$(OUTPUT)/blastn/NM_119522.err
NM_121516:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_121516 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_121516.out 2>$(OUTPUT)/blastn/NM_121516.err
NM_123063:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_123063 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_123063.out 2>$(OUTPUT)/blastn/NM_123063.err
NM_123974:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_123974 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_123974.out 2>$(OUTPUT)/blastn/NM_123974.err
NM_125747:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_125747 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_125747.out 2>$(OUTPUT)/blastn/NM_125747.err
NM_128200:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_128200 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_128200.out 2>$(OUTPUT)/blastn/NM_128200.err
NM_129081:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_129081 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_129081.out 2>$(OUTPUT)/blastn/NM_129081.err
NM_129947:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_129947 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_129947.out 2>$(OUTPUT)/blastn/NM_129947.err
NM_130992:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_130992 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_130992.out 2>$(OUTPUT)/blastn/NM_130992.err
NM_131948:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_131948 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_131948.out 2>$(OUTPUT)/blastn/NM_131948.err
NM_137396:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_137396 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_137396.out 2>$(OUTPUT)/blastn/NM_137396.err
NM_139215:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_139215 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_139215.out 2>$(OUTPUT)/blastn/NM_139215.err
NM_140971:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_140971 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_140971.out 2>$(OUTPUT)/blastn/NM_140971.err
NM_141653:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_141653 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_141653.out 2>$(OUTPUT)/blastn/NM_141653.err
NM_143027:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_143027 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_143027.out 2>$(OUTPUT)/blastn/NM_143027.err
NM_148416:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_148416 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_148416.out 2>$(OUTPUT)/blastn/NM_148416.err
NM_148929:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_148929 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_148929.out 2>$(OUTPUT)/blastn/NM_148929.err
NM_153450:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_153450 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_153450.out 2>$(OUTPUT)/blastn/NM_153450.err
NM_165592:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_165592 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_165592.out 2>$(OUTPUT)/blastn/NM_165592.err
NM_165778:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_165778 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_165778.out 2>$(OUTPUT)/blastn/NM_165778.err
NM_172544:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_172544 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_172544.out 2>$(OUTPUT)/blastn/NM_172544.err
NM_173579:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_173579 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_173579.out 2>$(OUTPUT)/blastn/NM_173579.err
NM_177947:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_177947 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_177947.out 2>$(OUTPUT)/blastn/NM_177947.err
NM_178660:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_178660 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_178660.out 2>$(OUTPUT)/blastn/NM_178660.err
NM_181804:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_181804 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_181804.out 2>$(OUTPUT)/blastn/NM_181804.err
NM_199062:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_199062 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_199062.out 2>$(OUTPUT)/blastn/NM_199062.err
NM_199917:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_199917 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_199917.out 2>$(OUTPUT)/blastn/NM_199917.err
NM_200637:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_200637 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_200637.out 2>$(OUTPUT)/blastn/NM_200637.err
NM_201154:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_201154 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_201154.out 2>$(OUTPUT)/blastn/NM_201154.err
NM_201544:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_201544 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_201544.out 2>$(OUTPUT)/blastn/NM_201544.err
NM_204556:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_204556 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_204556.out 2>$(OUTPUT)/blastn/NM_204556.err
NM_204856:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_204856 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_204856.out 2>$(OUTPUT)/blastn/NM_204856.err
NM_206511:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_206511 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_206511.out 2>$(OUTPUT)/blastn/NM_206511.err
NM_208786:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_208786 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_208786.out 2>$(OUTPUT)/blastn/NM_208786.err
NM_209353:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_209353 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_209353.out 2>$(OUTPUT)/blastn/NM_209353.err
NM_210903:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_210903 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_210903.out 2>$(OUTPUT)/blastn/NM_210903.err
NM_212511:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_212511 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_212511.out 2>$(OUTPUT)/blastn/NM_212511.err
NM_212927:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NM_212927 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NM_212927.out 2>$(OUTPUT)/blastn/NM_212927.err
NR_001849:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/NR_001849 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/NR_001849.out 2>$(OUTPUT)/blastn/NR_001849.err
XM_127602:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/XM_127602 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/XM_127602.out 2>$(OUTPUT)/blastn/XM_127602.err
XM_292700:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/XM_292700 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/XM_292700.out 2>$(OUTPUT)/blastn/XM_292700.err
XM_380977:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/XM_380977 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/XM_380977.out 2>$(OUTPUT)/blastn/XM_380977.err
XM_381615:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/XM_381615 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/XM_381615.out 2>$(OUTPUT)/blastn/XM_381615.err
XM_383032:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/XM_383032 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/XM_383032.out 2>$(OUTPUT)/blastn/XM_383032.err
XM_383923:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/XM_383923 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/XM_383923.out 2>$(OUTPUT)/blastn/XM_383923.err
XM_386257:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/XM_386257 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/XM_386257.out 2>$(OUTPUT)/blastn/XM_386257.err
XM_386298:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/XM_386298 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/XM_386298.out 2>$(OUTPUT)/blastn/XM_386298.err
XM_388447:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/XM_388447 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/XM_388447.out 2>$(OUTPUT)/blastn/XM_388447.err
XM_389205:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/XM_389205 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/XM_389205.out 2>$(OUTPUT)/blastn/XM_389205.err
XM_390593:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/XM_390593 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/XM_390593.out 2>$(OUTPUT)/blastn/XM_390593.err
XM_496429:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/XM_496429 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/XM_496429.out 2>$(OUTPUT)/blastn/XM_496429.err
XM_496701:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/XM_496701 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/XM_496701.out 2>$(OUTPUT)/blastn/XM_496701.err
XM_496943:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/XM_496943 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/XM_496943.out 2>$(OUTPUT)/blastn/XM_496943.err
XM_498223:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/XM_498223 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/XM_498223.out 2>$(OUTPUT)/blastn/XM_498223.err
XM_499196:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/XM_499196 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/XM_499196.out 2>$(OUTPUT)/blastn/XM_499196.err
XM_537059:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/XM_537059 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/XM_537059.out 2>$(OUTPUT)/blastn/XM_537059.err
XM_541461:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/XM_541461 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/XM_541461.out 2>$(OUTPUT)/blastn/XM_541461.err
XM_544537:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/XM_544537 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/XM_544537.out 2>$(OUTPUT)/blastn/XM_544537.err
XM_546594:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/XM_546594 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/XM_546594.out 2>$(OUTPUT)/blastn/XM_546594.err
XM_547606:
	$(TIME) $(BLASTN) -db $(NUCDB) $(QUERY_OPT) queries/blastn/XM_547606 $(BLASTN_OPTS) 1>$(OUTPUT)/blastn/XM_547606.out 2>$(OUTPUT)/blastn/XM_547606.err
NM_001000841:
	$(TIME) $(MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_001000841 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/NM_001000841.out 2>$(OUTPUT)/megablast/NM_001000841.err

NM_001008511:
	$(TIME) $(MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_001008511 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/NM_001008511.out 2>$(OUTPUT)/megablast/NM_001008511.err

NM_007622:
	$(TIME) $(MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_007622 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/NM_007622.out 2>$(OUTPUT)/megablast/NM_007622.err

NM_020327:
	$(TIME) $(MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_020327 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/NM_020327.out 2>$(OUTPUT)/megablast/NM_020327.err

NM_032130:
	$(TIME) $(MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_032130 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/NM_032130.out 2>$(OUTPUT)/megablast/NM_032130.err

NM_064997:
	$(TIME) $(MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_064997 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/NM_064997.out 2>$(OUTPUT)/megablast/NM_064997.err

NM_071881:
	$(TIME) $(MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_071881 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/NM_071881.out 2>$(OUTPUT)/megablast/NM_071881.err

NM_078614:
	$(TIME) $(MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_078614 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/NM_078614.out 2>$(OUTPUT)/megablast/NM_078614.err

NM_105954:
	$(TIME) $(MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_105954 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/NM_105954.out 2>$(OUTPUT)/megablast/NM_105954.err

NM_118167:
	$(TIME) $(MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_118167 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/NM_118167.out 2>$(OUTPUT)/megablast/NM_118167.err

NM_127277:
	$(TIME) $(MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_127277 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/NM_127277.out 2>$(OUTPUT)/megablast/NM_127277.err

NM_134656:
	$(TIME) $(MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_134656 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/NM_134656.out 2>$(OUTPUT)/megablast/NM_134656.err

NM_146415:
	$(TIME) $(MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_146415 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/NM_146415.out 2>$(OUTPUT)/megablast/NM_146415.err

NM_167127:
	$(TIME) $(MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_167127 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/NM_167127.out 2>$(OUTPUT)/megablast/NM_167127.err

NM_180448:
	$(TIME) $(MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_180448 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/NM_180448.out 2>$(OUTPUT)/megablast/NM_180448.err

NM_201405:
	$(TIME) $(MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_201405 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/NM_201405.out 2>$(OUTPUT)/megablast/NM_201405.err

NM_207059:
	$(TIME) $(MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_207059 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/NM_207059.out 2>$(OUTPUT)/megablast/NM_207059.err

NM_214357:
	$(TIME) $(MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_214357 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/NM_214357.out 2>$(OUTPUT)/megablast/NM_214357.err

XM_381431:
	$(TIME) $(MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/XM_381431 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/XM_381431.out 2>$(OUTPUT)/megablast/XM_381431.err

XM_386832:
	$(TIME) $(MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/XM_386832 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/XM_386832.out 2>$(OUTPUT)/megablast/XM_386832.err

NG_000006: 
	$(TIME) $(MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/$@ $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/$@.out 2>$(OUTPUT)/megablast/$@.err
NG_007385: 
	$(TIME) $(MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/$@ $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/$@.out 2>$(OUTPUT)/megablast/$@.err
NG_008929: 
	$(TIME) $(MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/$@ $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/$@.out 2>$(OUTPUT)/megablast/$@.err
NG_008953:
	$(TIME) $(MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/$@ $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/$@.out 2>$(OUTPUT)/megablast/$@.err

IDX_NM_001000841:
	$(TIME) $(IDX_MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_001000841 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/IDX_NM_001000841.out 2>$(OUTPUT)/megablast/IDX_NM_001000841.err

IDX_NM_001008511:
	$(TIME) $(IDX_MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_001008511 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/IDX_NM_001008511.out 2>$(OUTPUT)/megablast/IDX_NM_001008511.err

IDX_NM_007622:
	$(TIME) $(IDX_MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_007622 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/IDX_NM_007622.out 2>$(OUTPUT)/megablast/IDX_NM_007622.err

IDX_NM_020327:
	$(TIME) $(IDX_MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_020327 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/IDX_NM_020327.out 2>$(OUTPUT)/megablast/IDX_NM_020327.err

IDX_NM_032130:
	$(TIME) $(IDX_MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_032130 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/IDX_NM_032130.out 2>$(OUTPUT)/megablast/IDX_NM_032130.err

IDX_NM_064997:
	$(TIME) $(IDX_MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_064997 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/IDX_NM_064997.out 2>$(OUTPUT)/megablast/IDX_NM_064997.err

IDX_NM_071881:
	$(TIME) $(IDX_MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_071881 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/IDX_NM_071881.out 2>$(OUTPUT)/megablast/IDX_NM_071881.err

IDX_NM_078614:
	$(TIME) $(IDX_MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_078614 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/IDX_NM_078614.out 2>$(OUTPUT)/megablast/IDX_NM_078614.err

IDX_NM_105954:
	$(TIME) $(IDX_MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_105954 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/IDX_NM_105954.out 2>$(OUTPUT)/megablast/IDX_NM_105954.err

IDX_NM_118167:
	$(TIME) $(IDX_MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_118167 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/IDX_NM_118167.out 2>$(OUTPUT)/megablast/IDX_NM_118167.err

IDX_NM_127277:
	$(TIME) $(IDX_MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_127277 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/IDX_NM_127277.out 2>$(OUTPUT)/megablast/IDX_NM_127277.err

IDX_NM_134656:
	$(TIME) $(IDX_MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_134656 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/IDX_NM_134656.out 2>$(OUTPUT)/megablast/IDX_NM_134656.err

IDX_NM_146415:
	$(TIME) $(IDX_MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_146415 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/IDX_NM_146415.out 2>$(OUTPUT)/megablast/IDX_NM_146415.err

IDX_NM_167127:
	$(TIME) $(IDX_MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_167127 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/IDX_NM_167127.out 2>$(OUTPUT)/megablast/IDX_NM_167127.err

IDX_NM_180448:
	$(TIME) $(IDX_MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_180448 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/IDX_NM_180448.out 2>$(OUTPUT)/megablast/IDX_NM_180448.err

IDX_NM_201405:
	$(TIME) $(IDX_MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_201405 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/IDX_NM_201405.out 2>$(OUTPUT)/megablast/IDX_NM_201405.err

IDX_NM_207059:
	$(TIME) $(IDX_MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_207059 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/IDX_NM_207059.out 2>$(OUTPUT)/megablast/IDX_NM_207059.err

IDX_NM_214357:
	$(TIME) $(IDX_MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/NM_214357 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/IDX_NM_214357.out 2>$(OUTPUT)/megablast/IDX_NM_214357.err

IDX_XM_381431:
	$(TIME) $(IDX_MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/XM_381431 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/IDX_XM_381431.out 2>$(OUTPUT)/megablast/IDX_XM_381431.err

IDX_XM_386832:
	$(TIME) $(IDX_MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/XM_386832 $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/IDX_XM_386832.out 2>$(OUTPUT)/megablast/IDX_XM_386832.err

IDX_NG_000006: 
	$(TIME) $(IDX_MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/$@ $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/$@.out 2>$(OUTPUT)/megablast/$@.err
IDX_NG_007385: 
	$(TIME) $(IDX_MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/$@ $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/$@.out 2>$(OUTPUT)/megablast/$@.err
IDX_NG_008929: 
	$(TIME) $(IDX_MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/$@ $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/$@.out 2>$(OUTPUT)/megablast/$@.err
IDX_NG_008953:
	$(TIME) $(IDX_MEGABLAST) -db $(NUCDB) $(QUERY_OPT) queries/megablast/$@ $(MEGABLAST_OPTS) 1>$(OUTPUT)/megablast/$@.out 2>$(OUTPUT)/megablast/$@.err

NP_072902:
	$(TIME) $(TBLASTN) -db $(NUCDB) $(QUERY_OPT) queries/tblastn/NP_072902 $(TBLASTN_OPTS) 1>$(OUTPUT)/tblastn/NP_072902.out 2>$(OUTPUT)/tblastn/NP_072902.err

NP_308279:
	$(TIME) $(TBLASTN) -db $(NUCDB) $(QUERY_OPT) queries/tblastn/NP_308279 $(TBLASTN_OPTS) 1>$(OUTPUT)/tblastn/NP_308279.out 2>$(OUTPUT)/tblastn/NP_308279.err

NP_566058:
	$(TIME) $(TBLASTN) -db $(NUCDB) $(QUERY_OPT) queries/tblastn/NP_566058 $(TBLASTN_OPTS) 1>$(OUTPUT)/tblastn/NP_566058.out 2>$(OUTPUT)/tblastn/NP_566058.err

NP_693502:
	$(TIME) $(TBLASTN) -db $(NUCDB) $(QUERY_OPT) queries/tblastn/NP_693502 $(TBLASTN_OPTS) 1>$(OUTPUT)/tblastn/NP_693502.out 2>$(OUTPUT)/tblastn/NP_693502.err

NP_794869:
	$(TIME) $(TBLASTN) -db $(NUCDB) $(QUERY_OPT) queries/tblastn/NP_794869 $(TBLASTN_OPTS) 1>$(OUTPUT)/tblastn/NP_794869.out 2>$(OUTPUT)/tblastn/NP_794869.err

NP_920819:
	$(TIME) $(TBLASTN) -db $(NUCDB) $(QUERY_OPT) queries/tblastn/NP_920819 $(TBLASTN_OPTS) 1>$(OUTPUT)/tblastn/NP_920819.out 2>$(OUTPUT)/tblastn/NP_920819.err

NP_977725:
	$(TIME) $(TBLASTN) -db $(NUCDB) $(QUERY_OPT) queries/tblastn/NP_977725 $(TBLASTN_OPTS) 1>$(OUTPUT)/tblastn/NP_977725.out 2>$(OUTPUT)/tblastn/NP_977725.err

YP_022238:
	$(TIME) $(TBLASTN) -db $(NUCDB) $(QUERY_OPT) queries/tblastn/YP_022238 $(TBLASTN_OPTS) 1>$(OUTPUT)/tblastn/YP_022238.out 2>$(OUTPUT)/tblastn/YP_022238.err

YP_091579:
	$(TIME) $(TBLASTN) -db $(NUCDB) $(QUERY_OPT) queries/tblastn/YP_091579 $(TBLASTN_OPTS) 1>$(OUTPUT)/tblastn/YP_091579.out 2>$(OUTPUT)/tblastn/YP_091579.err

YP_147155:
	$(TIME) $(TBLASTN) -db $(NUCDB) $(QUERY_OPT) queries/tblastn/YP_147155 $(TBLASTN_OPTS) 1>$(OUTPUT)/tblastn/YP_147155.out 2>$(OUTPUT)/tblastn/YP_147155.err

NM_001003472:
	$(TIME) $(TBLASTX) -db $(NUCDB) $(QUERY_OPT) queries/tblastx/NM_001003472 $(TBLASTX_OPTS) 1>$(OUTPUT)/tblastx/NM_001003472.out 2>$(OUTPUT)/tblastx/NM_001003472.err

NM_011324:
	$(TIME) $(TBLASTX) -db $(NUCDB) $(QUERY_OPT) queries/tblastx/NM_011324 $(TBLASTX_OPTS) 1>$(OUTPUT)/tblastx/NM_011324.out 2>$(OUTPUT)/tblastx/NM_011324.err

NM_060094:
	$(TIME) $(TBLASTX) -db $(NUCDB) $(QUERY_OPT) queries/tblastx/NM_060094 $(TBLASTX_OPTS) 1>$(OUTPUT)/tblastx/NM_060094.out 2>$(OUTPUT)/tblastx/NM_060094.err

NM_074531:
	$(TIME) $(TBLASTX) -db $(NUCDB) $(QUERY_OPT) queries/tblastx/NM_074531 $(TBLASTX_OPTS) 1>$(OUTPUT)/tblastx/NM_074531.out 2>$(OUTPUT)/tblastx/NM_074531.err

NM_116017:
	$(TIME) $(TBLASTX) -db $(NUCDB) $(QUERY_OPT) queries/tblastx/NM_116017 $(TBLASTX_OPTS) 1>$(OUTPUT)/tblastx/NM_116017.out 2>$(OUTPUT)/tblastx/NM_116017.err

NM_133357:
	$(TIME) $(TBLASTX) -db $(NUCDB) $(QUERY_OPT) queries/tblastx/NM_133357 $(TBLASTX_OPTS) 1>$(OUTPUT)/tblastx/NM_133357.out 2>$(OUTPUT)/tblastx/NM_133357.err

NM_167296:
	$(TIME) $(TBLASTX) -db $(NUCDB) $(QUERY_OPT) queries/tblastx/NM_167296 $(TBLASTX_OPTS) 1>$(OUTPUT)/tblastx/NM_167296.out 2>$(OUTPUT)/tblastx/NM_167296.err

NM_202875:
	$(TIME) $(TBLASTX) -db $(NUCDB) $(QUERY_OPT) queries/tblastx/NM_202875 $(TBLASTX_OPTS) 1>$(OUTPUT)/tblastx/NM_202875.out 2>$(OUTPUT)/tblastx/NM_202875.err

XM_194279:
	$(TIME) $(TBLASTX) -db $(NUCDB) $(QUERY_OPT) queries/tblastx/XM_194279 $(TBLASTX_OPTS) 1>$(OUTPUT)/tblastx/XM_194279.out 2>$(OUTPUT)/tblastx/XM_194279.err

XM_391679:
	$(TIME) $(TBLASTX) -db $(NUCDB) $(QUERY_OPT) queries/tblastx/XM_391679 $(TBLASTX_OPTS) 1>$(OUTPUT)/tblastx/XM_391679.out 2>$(OUTPUT)/tblastx/XM_391679.err

NP_085504:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/NP_085504 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/NP_085504.out 2>$(OUTPUT)/blastp/NP_085504.err

NP_174344:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/NP_174344 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/NP_174344.out 2>$(OUTPUT)/blastp/NP_174344.err

NP_214548:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/NP_214548 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/NP_214548.out 2>$(OUTPUT)/blastp/NP_214548.err

NP_245243:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/NP_245243 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/NP_245243.out 2>$(OUTPUT)/blastp/NP_245243.err

NP_308413:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/NP_308413 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/NP_308413.out 2>$(OUTPUT)/blastp/NP_308413.err

NP_345015:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/NP_345015 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/NP_345015.out 2>$(OUTPUT)/blastp/NP_345015.err

NP_349135:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/NP_349135 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/NP_349135.out 2>$(OUTPUT)/blastp/NP_349135.err

NP_436070:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/NP_436070 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/NP_436070.out 2>$(OUTPUT)/blastp/NP_436070.err

NP_566269:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/NP_566269 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/NP_566269.out 2>$(OUTPUT)/blastp/NP_566269.err

NP_611552:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/NP_611552 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/NP_611552.out 2>$(OUTPUT)/blastp/NP_611552.err

NP_633288:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/NP_633288 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/NP_633288.out 2>$(OUTPUT)/blastp/NP_633288.err

NP_670887:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/NP_670887 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/NP_670887.out 2>$(OUTPUT)/blastp/NP_670887.err

NP_706440:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/NP_706440 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/NP_706440.out 2>$(OUTPUT)/blastp/NP_706440.err

NP_733286:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/NP_733286 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/NP_733286.out 2>$(OUTPUT)/blastp/NP_733286.err

NP_781168:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/NP_781168 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/NP_781168.out 2>$(OUTPUT)/blastp/NP_781168.err

NP_784621:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/NP_784621 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/NP_784621.out 2>$(OUTPUT)/blastp/NP_784621.err

NP_818972:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/NP_818972 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/NP_818972.out 2>$(OUTPUT)/blastp/NP_818972.err

NP_864591:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/NP_864591 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/NP_864591.out 2>$(OUTPUT)/blastp/NP_864591.err

NP_872878:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/NP_872878 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/NP_872878.out 2>$(OUTPUT)/blastp/NP_872878.err

NP_894055:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/NP_894055 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/NP_894055.out 2>$(OUTPUT)/blastp/NP_894055.err

NP_931067:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/NP_931067 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/NP_931067.out 2>$(OUTPUT)/blastp/NP_931067.err

NP_937947:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/NP_937947 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/NP_937947.out 2>$(OUTPUT)/blastp/NP_937947.err

NP_952492:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/NP_952492 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/NP_952492.out 2>$(OUTPUT)/blastp/NP_952492.err

NP_965272:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/NP_965272 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/NP_965272.out 2>$(OUTPUT)/blastp/NP_965272.err

XP_237451:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/XP_237451 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/XP_237451.out 2>$(OUTPUT)/blastp/XP_237451.err

XP_499151:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/XP_499151 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/XP_499151.out 2>$(OUTPUT)/blastp/XP_499151.err

XP_610726:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/XP_610726 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/XP_610726.out 2>$(OUTPUT)/blastp/XP_610726.err

YP_000338:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/YP_000338 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/YP_000338.out 2>$(OUTPUT)/blastp/YP_000338.err

YP_054627:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/YP_054627 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/YP_054627.out 2>$(OUTPUT)/blastp/YP_054627.err

YP_062020:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/YP_062020 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/YP_062020.out 2>$(OUTPUT)/blastp/YP_062020.err

YP_069013:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/YP_069013 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/YP_069013.out 2>$(OUTPUT)/blastp/YP_069013.err

YP_081219:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/YP_081219 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/YP_081219.out 2>$(OUTPUT)/blastp/YP_081219.err

YP_121326:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/YP_121326 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/YP_121326.out 2>$(OUTPUT)/blastp/YP_121326.err

YP_129633:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/YP_129633 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/YP_129633.out 2>$(OUTPUT)/blastp/YP_129633.err

YP_137100:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/YP_137100 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/YP_137100.out 2>$(OUTPUT)/blastp/YP_137100.err

YP_141079:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/YP_141079 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/YP_141079.out 2>$(OUTPUT)/blastp/YP_141079.err

YP_182226:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/YP_182226 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/YP_182226.out 2>$(OUTPUT)/blastp/YP_182226.err

YP_189837:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/YP_189837 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/YP_189837.out 2>$(OUTPUT)/blastp/YP_189837.err

YP_209371:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/YP_209371 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/YP_209371.out 2>$(OUTPUT)/blastp/YP_209371.err

YP_244862:
	$(TIME) $(BLASTP) -db $(PROTDB) $(QUERY_OPT) queries/blastp/YP_244862 $(BLASTP_OPTS) 1>$(OUTPUT)/blastp/YP_244862.out 2>$(OUTPUT)/blastp/YP_244862.err

NM_001004160:
	$(TIME) $(BLASTX) -db $(PROTDB) $(QUERY_OPT) queries/blastx/NM_001004160 $(BLASTX_OPTS) 1>$(OUTPUT)/blastx/NM_001004160.out 2>$(OUTPUT)/blastx/NM_001004160.err

NM_004838:
	$(TIME) $(BLASTX) -db $(PROTDB) $(QUERY_OPT) queries/blastx/NM_004838 $(BLASTX_OPTS) 1>$(OUTPUT)/blastx/NM_004838.out 2>$(OUTPUT)/blastx/NM_004838.err

NM_013165:
	$(TIME) $(BLASTX) -db $(PROTDB) $(QUERY_OPT) queries/blastx/NM_013165 $(BLASTX_OPTS) 1>$(OUTPUT)/blastx/NM_013165.out 2>$(OUTPUT)/blastx/NM_013165.err

NM_025457:
	$(TIME) $(BLASTX) -db $(PROTDB) $(QUERY_OPT) queries/blastx/NM_025457 $(BLASTX_OPTS) 1>$(OUTPUT)/blastx/NM_025457.out 2>$(OUTPUT)/blastx/NM_025457.err

NM_061919:
	$(TIME) $(BLASTX) -db $(PROTDB) $(QUERY_OPT) queries/blastx/NM_061919 $(BLASTX_OPTS) 1>$(OUTPUT)/blastx/NM_061919.out 2>$(OUTPUT)/blastx/NM_061919.err

NM_069868:
	$(TIME) $(BLASTX) -db $(PROTDB) $(QUERY_OPT) queries/blastx/NM_069868 $(BLASTX_OPTS) 1>$(OUTPUT)/blastx/NM_069868.out 2>$(OUTPUT)/blastx/NM_069868.err

NM_076353:
	$(TIME) $(BLASTX) -db $(PROTDB) $(QUERY_OPT) queries/blastx/NM_076353 $(BLASTX_OPTS) 1>$(OUTPUT)/blastx/NM_076353.out 2>$(OUTPUT)/blastx/NM_076353.err

NM_104152:
	$(TIME) $(BLASTX) -db $(PROTDB) $(QUERY_OPT) queries/blastx/NM_104152 $(BLASTX_OPTS) 1>$(OUTPUT)/blastx/NM_104152.out 2>$(OUTPUT)/blastx/NM_104152.err

NM_117313:
	$(TIME) $(BLASTX) -db $(PROTDB) $(QUERY_OPT) queries/blastx/NM_117313 $(BLASTX_OPTS) 1>$(OUTPUT)/blastx/NM_117313.out 2>$(OUTPUT)/blastx/NM_117313.err

NM_126194:
	$(TIME) $(BLASTX) -db $(PROTDB) $(QUERY_OPT) queries/blastx/NM_126194 $(BLASTX_OPTS) 1>$(OUTPUT)/blastx/NM_126194.out 2>$(OUTPUT)/blastx/NM_126194.err

NM_134961:
	$(TIME) $(BLASTX) -db $(PROTDB) $(QUERY_OPT) queries/blastx/NM_134961 $(BLASTX_OPTS) 1>$(OUTPUT)/blastx/NM_134961.out 2>$(OUTPUT)/blastx/NM_134961.err

NM_147897:
	$(TIME) $(BLASTX) -db $(PROTDB) $(QUERY_OPT) queries/blastx/NM_147897 $(BLASTX_OPTS) 1>$(OUTPUT)/blastx/NM_147897.out 2>$(OUTPUT)/blastx/NM_147897.err

NM_169361:
	$(TIME) $(BLASTX) -db $(PROTDB) $(QUERY_OPT) queries/blastx/NM_169361 $(BLASTX_OPTS) 1>$(OUTPUT)/blastx/NM_169361.out 2>$(OUTPUT)/blastx/NM_169361.err

NM_198684:
	$(TIME) $(BLASTX) -db $(PROTDB) $(QUERY_OPT) queries/blastx/NM_198684 $(BLASTX_OPTS) 1>$(OUTPUT)/blastx/NM_198684.out 2>$(OUTPUT)/blastx/NM_198684.err

NM_203204:
	$(TIME) $(BLASTX) -db $(PROTDB) $(QUERY_OPT) queries/blastx/NM_203204 $(BLASTX_OPTS) 1>$(OUTPUT)/blastx/NM_203204.out 2>$(OUTPUT)/blastx/NM_203204.err

NM_209669:
	$(TIME) $(BLASTX) -db $(PROTDB) $(QUERY_OPT) queries/blastx/NM_209669 $(BLASTX_OPTS) 1>$(OUTPUT)/blastx/NM_209669.out 2>$(OUTPUT)/blastx/NM_209669.err

XM_235217:
	$(TIME) $(BLASTX) -db $(PROTDB) $(QUERY_OPT) queries/blastx/XM_235217 $(BLASTX_OPTS) 1>$(OUTPUT)/blastx/XM_235217.out 2>$(OUTPUT)/blastx/XM_235217.err

XM_384252:
	$(TIME) $(BLASTX) -db $(PROTDB) $(QUERY_OPT) queries/blastx/XM_384252 $(BLASTX_OPTS) 1>$(OUTPUT)/blastx/XM_384252.out 2>$(OUTPUT)/blastx/XM_384252.err

XM_484008:
	$(TIME) $(BLASTX) -db $(PROTDB) $(QUERY_OPT) queries/blastx/XM_484008 $(BLASTX_OPTS) 1>$(OUTPUT)/blastx/XM_484008.out 2>$(OUTPUT)/blastx/XM_484008.err

XM_536409:
	$(TIME) $(BLASTX) -db $(PROTDB) $(QUERY_OPT) queries/blastx/XM_536409 $(BLASTX_OPTS) 1>$(OUTPUT)/blastx/XM_536409.out 2>$(OUTPUT)/blastx/XM_536409.err

NG_000006b: 
	$(TIME) $(BLASTX) -db $(PROTDB) $(QUERY_OPT) queries/blastx/$@ $(BLASTX_OPTS) 1>$(OUTPUT)/blastx/$@.out 2>$(OUTPUT)/blastx/$@.err
NG_007385b: 
	$(TIME) $(BLASTX) -db $(PROTDB) $(QUERY_OPT) queries/blastx/$@ $(BLASTX_OPTS) 1>$(OUTPUT)/blastx/$@.out 2>$(OUTPUT)/blastx/$@.err
NG_008929b: 
	$(TIME) $(BLASTX) -db $(PROTDB) $(QUERY_OPT) queries/blastx/$@ $(BLASTX_OPTS) 1>$(OUTPUT)/blastx/$@.out 2>$(OUTPUT)/blastx/$@.err
NG_008953b:
	$(TIME) $(BLASTX) -db $(PROTDB) $(QUERY_OPT) queries/blastx/$@ $(BLASTX_OPTS) 1>$(OUTPUT)/blastx/$@.out 2>$(OUTPUT)/blastx/$@.err