GENES 2885:::H37Ra..7H9.roll.replicate.3 2885:::H37Rv..7H9.roll.replicate.2 2885:::Strain.1843..replicate.4 4055:::H37Rv.Vs.M.bovis.rep1 4060:::H37Rv.sigE.null.0.05..SDS.exposure.for.1h.rep.2 4060:::H37Rv.sigE.null.0.05..SDS.exposure.for.1h.rep.4 4060:::H37Rv.sigE.null.0.05..SDS.exposure.for.1h.rep.5 4062:::H37Rv.0.day.ctrl.vs.Rv3132.34.KO.hypoxia.4.day.rep.3 4062:::H37Rv.0.day.ctrl.vs.Rv3132.34.KO.hypoxia.4.day.rep.4 4062:::H37Rv.ctrl.vs.Rv3132.3134.KO..0.05.mM.DETA.NO.40min.rep.2 4062:::MTB.strain.1254.Ctrl.vs.0.5.mM.DETA.NO.1hr.rep.2 4062:::MTB.strain.1254.Ctrl.vs.2hr.Hypoxia.rep.2 4062:::MTB.strain.1254.Ctrl.vs.high.aeration...0.001.mM.DETA.NO.rep.2 4062:::MTB.strain.1254.Ctrl.vs.high.aeration...0.005.mM.DETA.NO.rep.2 4062:::MTB.strain.1254.Ctrl.vs.high.aeration.rep2 4062:::MTB.strain.1254.Ctrl.vs.low.aeration...0.005.mM.DETA.NO.rep.1 4062:::MTB.strain.1254.Ctrl.vs.low.aeration...0.05.mM.DETA.NO.rep.2 4062:::MTB1254.Day.0.vs.low.Oxygen.Day.4.rep.3 4068:::H37Rv.SDS.treated.vs..H37Rv.delta.mprAB.mutant.SDS.treated.rep.5 4089:::H37Rv.wild.type.vs..H37Rv.whiB7.null.rep.6 4089:::MTB1254.control.vs..1.0.ug.ml.Streptomycin.for.15.min.rep.4 4089:::MTB1254.control.vs..1.0.ug.ml.Streptomycin.for.2.hr..ref..rep.1 4089:::MTB1254.control.vs..100.ug.ml.Streptomycin.for.15.min.rep.1 4089:::MTB1254.ethanol.vs..0.5.ug.ml.Tetracyclin.for.30.min.rep.2 4089:::MTB1254.ethanol.vs..1.0.ug.ml.Erythromycin.for.30.min.rep.3 4089:::MTB1254.ethanol.vs..1.0.ug.ml.Tetracyclin.for.2.hr.rep.2 4101:::H37Rv.Day14.1 4101:::NRP.Day20..1 4101:::NRP.Day6..1 4101:::NRP.Day6..3 4107:::pH5.6vspH6.8..16h. 4107:::X0.12mg.mL.NamvspH5.6..7h. 4107:::X0.12mg.mL.PZAvspH5.6..10.5h. 4107:::X0.5ug.mL..111891vsDMSO.6h 4107:::X0.5ug.mL..124196vsDMSO..6hA 4107:::X0.5ug.mL.CervsEtOH..6h 4107:::X1.2mg.mL.PZAvspH5.6..10.5h. 4107:::X1.2mg.mL.PZAvspH5.6..7h. 4107:::X10ug.mL.RoxvsEtOH..6h 4107:::X10ug.mL.RoxvsEtOH..6hA 4107:::X10ug.mL.TetvsEtOH..6h 4107:::X10ug.mL.TetvsEtOH..6hA 4107:::X10ug.mL.TriclosanvsDMSO..6hA 4107:::X20ug.mL.Cephalexin.Ctrl..6h..1 4107:::X20ug.mL.Cephalexin.Ctrl..6h..2 4107:::X20ug.mL.KCN.DMSO..6h 4107:::X20ug.mL.methoxatinvsDMSO..6h 4107:::X20uM.DCCD.DMSO..6h..2 4107:::X25ug.mL.AntimycinvsDMSO..6h 4107:::X30ug.mL.RoxvsEtOH..6h 4107:::X30ug.mL.RoxvsEtOH..6hA 4107:::X50uM.NigericinvsDMSO..6h.A 4107:::X5ug.mL.CapvsEtOH..6h 4107:::X5ug.mL.CapvsEtOH..6hA 4363:::H37Rv.hypoxia.4hr.rep.5 4396:::H37Rv.cDNA.Cy3.vs.H37Rv.gDNA.Cy5..DS..rep.1 4396:::Strain.27.cDNA.Cy3.vs.H37Rv.gDNA.Cy5..DS..rep.1 4396:::Strain.49.cDNA.Cy3.vs.H37Rv.gDNA.Cy5..DS..rep.2 4489:::MTB1254.Opp.KO.complemented.vs.Opp.KO.in.7H9OADC..OD..1.0.1 4489:::MTB1254.WT.vs.Rv3662c.3665c.KO.in.7H9OADC.Exp2..OD.0.3.4 4489:::MTB1254.WT.vs.Rv3662c.3665c.KO.in.7H9OADC.Exp2..OD1.3 4523:::H37Rv.sigB.null.mutant.control.vs.0.05..SDS.for.60.min.rep.1 4523:::H37Rv.sigB.null.mutant.control.vs.0.05..SDS.for.60.min.rep.3 4523:::H37Rv.sigB.null.mutant.control.vs.5mM.Diamide.for.60.min.rep.4 4523:::H37Rv.wild.type.vs.H37Rv.sigB.null.mutant.rep.2 4523:::H37Rv.wild.type.vs.H37Rv.sigB.null.mutant.rep.5 4523:::H37Rv.wild.type.Vs.H37Rv.wild.type.rep.2 4523:::H37Rv.wild.type.Vs.H37Rv.wild.type.rep.3 4575:::Extracted.Lung.Surfactant.2hrs.rep.1 4575:::Extracted.Lung.Surfactant.30min.rep.3 4575:::Purified.Human.SP.A.Coated.2hrs.rep2 4575:::Purified.Surfactant.Lipids.30min.rep.1 4583:::X0.32ug.mL.Cerulenin.vs.Ethanol.6hrs.rep.1 4583:::X0.5ug.mL.Cerulenin.vs.Ethanol..6hrs.rep.1 4583:::X20ug.ml.KCN.vs.DMSO.6hrs 4615:::AA_10uM_10.min_01 4615:::AA_30uM_1h_05 4615:::AA_30uM_1h_06 4615:::AA_30uM_2h_02 4615:::AA_30uM_2h_04 4615:::AA_30uM_4h_08 4615:::AA_3uM_10min_02 4615:::AA_3uM_2h_T0_01 4615:::AA_60uM_24h_03 4615:::Acetate.3mM.30m.03 4615:::Acetate.3mM.60m.01 4615:::CHP_25uM_24h_01 4615:::CHP_25uM_2h_01 4615:::CHP.AA.24h.1 4615:::CHP.AA.4h.1 4615:::CK.for.OA.4h.1 4615:::ETYA_10uM.AA_1h_02 4615:::L2A_30uM_10min_05 4615:::L2A_30uM_1h_01 4615:::L2A_30uM_1h_07 4615:::L2A_30uM_2h_01 4615:::L2A_30uM_2h_02 4615:::L2A_30uM_30min_02 4615:::L2A_30uM_30Min_06 4615:::L2A_30uM_4h_08 4615:::MDGCy3.7H9Cy5.02 4615:::MDGCy3.7H9Cy5.03 4615:::MTB1248_PA50_1h_02 4615:::MTB1254_Bottom_10D_02 4615:::MTB1254_Bottom_14D_04 4615:::MTB1254_Bottom_21D_01 4615:::MTB1254_Bottom_21D_02 4615:::MTB1254_Bottom_21D_03 4615:::MTB1254_Bottom_21D_04 4615:::MTB1254_Bottom_42D_03 4615:::MTB1254_Bottom_42D_04 4615:::MTB1254_FA5_10min_02 4615:::MTB1254_Pellicle_21D_03 4615:::MTB1254_Pellicle_21D_04 4615:::MTB1254_Pellicle_42D_01 4615:::MTB1254_Pellicle_42D_02 4615:::MTB1254_Pellicle_42D_03 4615:::MTB1254_Pellicle_42D_04 4615:::MTB1254_SDS_90MIN_03 4615:::MTB1254_SDS_90MIN_04 4615:::MTB1254.0485.1._Act_2h_01 4615:::MTB1254.3524.1._PA_12h_01 4615:::MTB1254.3524.1._PA_12h_03 4615:::MTB1254.3524.1._PA_12h_06 4615:::MTB1254.B4.1.Compl._OA_30MIN_03 4615:::MTB1254.B4.1.Compl._PA_4h_04 4615:::MTB1254.fadA._01 4615:::MTB1254.whiB4_SDS_90MIN_01 4615:::MTB1254whiB4_SDS_90MIN_01 4615:::MTB1254whiB4_SDS_90MIN_02 4615:::MTB1254whiB4_SDS_90MIN_03 4615:::MTB1254whiB4_SDS_90MIN_04 4615:::MTB1370_PA50_1h_01 4615:::MTB1370_PA50_1h_03 4615:::MTB1370_PA50_1h_04 4615:::MTB889_PA50_1h_01 4615:::OA_50uM_1h_02 4615:::OA_50uM_1h_03 4615:::OA_50uM_1h_04 4615:::OA_50uM_1h_05 4615:::OA_50uM_1h_06 4615:::OA_50uM_1h_10 4615:::OA_50uM_2h_03 4615:::OA_50uM_2h_05 4615:::OA_50uM_2h_06 4615:::OA_50uM_2h_07 4615:::OA_50uM_2h_10 4615:::OA_50uM_30min_03 4615:::OA_50uM_30min_05 4615:::OA_50uM_4h_04 4615:::OA_50uM_4h_09 4615:::PA_100uM_2h_T0_01 4615:::PA_10uM_2h_T0_01 4615:::PA_300uM_4h_T0_01 4615:::PA_50uM_10min_T0_01 4615:::PA_50uM_12h_02 4615:::PA_50uM_12h_03 4615:::PA_50uM_12h_05 4615:::PA_50uM_12h_06 4615:::PA_50uM_1h_02 4615:::PA_50uM_1h_03 4615:::PA_50uM_2h_T0_01 4615:::PA_50uM_4h_01 4615:::PA_50uM_4h_02 4615:::PA_50uM_4h_04 4615:::PA_50uM_8h_01 4615:::PA_50uM_8h_02 4615:::PA_50uM_8h_06 4615:::PA_50uM.OA_10uM_2h_04 4615:::PA_50uM.OA_10uM_4h_01 4615:::PA_50uM.OA_10uM_4h_02 4615:::PA_50uM.OA_10uM_4h_03 4615:::Rv.3524.1._01 4615:::SDS_3h_01 4615:::SDS_60min_01 4615:::Starvation_1254_12h_01 4615:::Starvation_1254_12h_02 4615:::Starvation_1254_12h_03 4615:::Starvation_1254_12h_04 4615:::Starvation_1254_24h_01 4615:::Starvation_1254_24h_03 4615:::Starvation_1254_24h_04 4615:::Starvation_1254_24h_06 4615:::Starvation_1254_24h_07 4615:::Starvation_1254_24h_08 4615:::Starvation_1254_3d_01 4615:::Starvation_1254_3d_02 4615:::Starvation_1254_3d_03 4615:::Starvation_1254_5d_01 4615:::Starvation_1254_5d_03 4615:::Starvation_1254_6h_01 4615:::Starvation_1254_6h_02 4615:::Starvation_1254_6h_03 4615:::Starvation_1254_6h_05 4615:::Starvation_1254_6h_06 4615:::Starvation_1254_OA50_12h_01 4615:::Starvation_1254_OA50_12h_02 4615:::Starvation_1254_OA50_12h_03 4615:::Starvation_1254_OA50_12h_04 4615:::Starvation_1254_OA50_24h_01 4615:::Starvation_1254_OA50_3d_03 4615:::Starvation_1254_OA50_5d_04 4615:::Starvation_1254_OA50_6h_04 4615:::Starvation_1254_PA50.OA30_24h_01 4615:::Starvation_1254_PA50.OA30_24h_02 4615:::Starvation_1254_PA50.OA30_24h_03 4615:::Starvation_1254_PA50.OA30_6h_02 4615:::Starvation_1254_PA50.OA30_6h_03 4615:::Starvation_OA50_24h_02 4615:::TBD094 4615:::X2.2..Dipyridyl_1mM.Dpd.AA_50uM_01 4615:::X7H9MTB1254_SDS_90MIN_01 4630:::H37Rv.wild.type.Cy3.vs.Rv0485.Tn.mutant.Cy5.rep.3 4630:::H37Rv.wild.type.Cy5.vs.Rv0485.Tn.mutant.Cy3..DS..rep.1 4630:::H37Rv.wild.type.Cy5.vs.Rv0485.Tn.mutant.Cy3..DS..rep.3 4696:::H37Rv.wt.vs.dosS.dosT.null.anaerobic.Gaspak.4hr.rep.3 4699:::CDC1551.Ctrl.vs.clinical.isolate.10517.01_Afri2.rep.2 4699:::CDC1551.Ctrl.vs.clinical.isolate.1500.03_Beijing.rep.1 4699:::CDC1551.Ctrl.vs.clinical.isolate.1934.03_Beijing.rep.1 4699:::CDC1551.Ctrl.vs.clinical.isolate.1934.03_Beijing.rep.2 4699:::CDC1551.Ctrl.vs.clinical.isolate.2169.99_Uganda.rep.3 4699:::CDC1551.Ctrl.vs.clinical.isolate.2333.99_Uganda.rep.2 4699:::CDC1551.Ctrl.vs.clinical.isolate.2336.02_Haarlem.rep.2 4699:::CDC1551.Ctrl.vs.clinical.isolate.4130.02_Haarlem.rep.3 4699:::CDC1551.Ctrl.vs.clinical.isolate.5468.02_Afri2.rep.1 4699:::CDC1551.Ctrl.vs.clinical.isolate.947.01_EAI.rep.3 4703:::Clinical.isolate.1934.03_Beijing.extra.vs.intracellular.in.resting.macrophages.rep.1 4703:::Clinical.isolate.1934.03_Beijing.extra.vs.intracellular.in.resting.macrophages.rep.2 4704:::Clinical.isolate.12954.03_Beijing.extra.vs.intracellular.in.activated.macrophages.rep.1 4704:::Clinical.isolate.2169.99_Uganda.extra.vs.intracellular.in.activated.macrophages.rep.2 4704:::Clinical.isolate.2333.99_Uganda.extra.vs.intracellular.in.activated.macrophages.rep.1 4729:::H37Rv.wild.type.vs.PepD.null.mutant.rep.1 4735:::BCG.wild.type.vs.BCG.with.pMFdosR.at.OD.0.4.rep.2 4795:::CDC1551.ctrl.vs.10.ug.ml.Thioridazine.2hr.rep.1 4795:::CDC1551.ctrl.vs.10.ug.ml.Thioridazine.6hr.rep.1 4795:::CDC1551.ctrl.vs.40.ug.ml.Thioridazine.1hr.rep.2 4795:::CDC1551.ctrl.vs.40.ug.ml.Thioridazine.2hr.rep.2 4799:::H37Rv.nutrient.starved..ctrl.vs.1ug.ml.Isoniazid.for.2hrs.rep.1 4799:::H37Rv.O2.depleted..ctrl.vs.1ug.ml.Isoniazid.for.2hrs.rep.3 4802:::H37Rv.ctrl.vs.relE2.overexpression.72.hr.rep.1 4802:::H37Rv.ctrl.vs.relE2.overexpression.72.hr.rep.3 Maciag_JBacteriol2007:::H37Rv.wild.type.vs.H37Rv.FurB.null.rep.4 Schnappinger_JEM2003:::MTB.in.Wild.type.macrophages...IFNg.for.48hrs RV0201C 0.084311344934574 1.34898151895319 -2.14993929583165 -0.641588771209444 -0.0374717088598108 -0.674490759476595 -0.674490759476595 0.55 1.35 0.55 -1.05 -0.7 0.45 0.25 -0.2 -0.55 -1.2 0.1 0.653412923242952 0.0599547341756973 -0.779411544284066 -0.389705772142033 -1.1691173164261 0 0.269796303790638 0.209841569614941 0.174867974679117 -0.824377594915839 0.149886835439243 0.124905696199369 -0.438418993659787 -1.11290975313638 -0.168622689869149 0.438418993659787 0.674490759476595 0.134898151895319 0.0674490759476595 0.134898151895319 3.13638203156617 3.03520841764468 1.41643059490085 1.82112505058681 0 0.0674490759476595 -0.0337245379738298 -2.09092135437745 0.0337245379738297 0.236071765816808 -0.607041683528936 1.51760420882234 1.48387967084851 0.337245379738298 1.48387967084851 0.843113449345744 0.445645680368465 NA NA NA NA NA NA 0.45 0.4 -0.8 -0.8 -0.25 -0.3 -1 -0.688841626699501 -0.287017344458126 3.67382200906401 -0.258315610012313 0.481779113911854 0.0578134936694225 -2.48598022778517 0.0586513703892691 -0.234605481557077 0.410559592724884 0.117302740778538 0.498536648308788 0.498536648308788 -0.586513703892691 0.439885277919519 0.938421926228306 0.498536648308788 1.02639898181221 -4.07627024205421 -0.997073296617575 -0.557188018698057 -1.34898151895319 0.557188018698057 0.645165074281961 0.146628425973173 -0.733142129865864 0.293256851946346 0.351908222335615 0.381233907530249 0.381233907530249 0.557188018698057 0.351908222335615 0.879770555839037 1.23167877817465 0.645165074281961 -1.73021542648344 -1.23167877817465 -3.40177948257761 -1.46628425973173 -0.645165074281961 -1.67156405609417 -1.7008897412888 -0.850444870644403 -0.967747611422941 -0.263931166751711 -0.850444870644403 -2.84459146387955 -2.84459146387955 -1.37830720414782 -2.14077501920832 -0.527862333503422 -0.32258253714098 0.234605481557077 2.08212364881905 0.821119185449768 2.75661440829565 0.0293256851946346 1.14370172259075 -4.78008668672544 0.205279796362442 -1.40763288934246 -0.938421926228306 -1.23167877817465 -0.938421926228306 0.557188018698057 0.498536648308788 -0.381233907530249 0.70381644467123 -0.234605481557077 1.23167877817465 -0.234605481557077 -0.205279796362442 -0.410559592724884 1.87684385245661 -0.293256851946346 2.52200892673857 1.64223837089954 2.22875207479223 1.67156405609417 -0.117302740778538 0.234605481557077 0.175954111167807 0.967747611422941 -2.49268324154394 -0.351908222335615 -0.762467815060499 0.263931166751711 1.40763288934246 1.02639898181221 -0.263931166751711 1.34898151895319 0.498536648308788 -0.938421926228306 0.205279796362442 1.17302740778538 1.34898151895319 2.49268324154394 0.791793500255134 -0.32258253714098 1.58358700051027 0.439885277919519 0.469210963114153 0.821119185449768 0.498536648308788 0.263931166751711 -0.469210963114153 1.26100446336929 -2.81526577868492 NA -3.84166476049713 -2.75661440829565 -1.90616953765125 -0.850444870644403 0.0586513703892691 -1.58358700051027 0.146628425973173 -1.05572466700684 -2.63931166751711 -2.4633575563493 -2.55133461193321 -0.263931166751711 -1.08505035220148 -2.49268324154394 -2.08212364881905 -1.81819248206734 -1.23167877817465 -0.674490759476595 -1.05572466700684 0.70381644467123 -1.64223837089954 -0.762467815060499 1.08505035220148 -0.205279796362442 -0.175954111167807 -1.87684385245661 0.70381644467123 0.175954111167807 0 -0.879770555839037 -1.20235309298002 1.08505035220148 0.293256851946346 -1.14370172259075 -0.117302740778538 0.41900183543243 -0.889101455673694 -2.77971949360051 0.22884507910813 -1.18035882908404 -0.457690158216261 0.794935537954558 -0.794935537954559 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POSITION A C G T 1 0.222222 0.666667 0 0.111111 2 0.333333 0 0 0.666667 3 0.222222 0.555556 0.222222 0 4 0.111111 0 0.888889 0 5 0 0 1 0 6 0.222222 0.666667 0 0.111111 7 0.111111 0 0.555556 0.333333 8 0.111111 0.777778 0.111111 0 9 0 1 0 0 10 0 0 1 0 11 0 1 0 0 12 0 1 0 0 13 0.666667 0.111111 0 0.222222 14 0.777778 0 0 0.222222 15 0 0.888889 0.111111 0