breseq  version 0.33.1  revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Predicted mutations
evidence seq id position mutation freq annotation gene description
RA CP000731 81 N→G 100% intergenic (–/‑151)  / → repA –/replication protein A
JC CP000731 6,552 +28 bp 100% intergenic (+1069/‑419) cadX → / → USA300HOU_pUSA300HOUMR0010 cadmium efflux regulator/MarR family transcriptional regulator
RA CP000731 12,012 A→G 5.2% intergenic (+175/+48) USA300HOU_pUSA300HOUMR0014 → / ← USA300HOU_pUSA300HOUMR0015 recombinase/hypothetical protein
RA CP000731 25,663 Δ1 bp 100% coding (316/333 nt) USA300HOU_pUSA300HOUMR0031 → hypothetical protein
RA USA300TCH1516_ALE 3,344 A→T 5.2% intergenic (+28/‑362) dnaN → / → USA300HOU_RS00015 DNA polymerase III subunit beta/hypothetical protein
RA USA300TCH1516_ALE 9,710 T→C 6.4% intergenic (+15/+72) gyrA → / ← nnrD DNA gyrase subunit A/ADP‑dependent (S)‑NAD(P)H‑hydrate dehydratase
RA USA300TCH1516_ALE 9,716 T→C 5.9% intergenic (+21/+66) gyrA → / ← nnrD DNA gyrase subunit A/ADP‑dependent (S)‑NAD(P)H‑hydrate dehydratase
RA USA300TCH1516_ALE 9,719 G→A 5.8% intergenic (+24/+63) gyrA → / ← nnrD DNA gyrase subunit A/ADP‑dependent (S)‑NAD(P)H‑hydrate dehydratase
RA USA300TCH1516_ALE 110,660 T→A 9.6% I173I (ATT→ATA USA300HOU_RS00515 → putative lipoprotein
RA USA300TCH1516_ALE 111,512 A→G 32.2% S194S (TCA→TCG USA300HOU_RS00520 → putative lipoprotein
RA USA300TCH1516_ALE 111,516 C→A 30.5% Q196K (CAA→AAA)  USA300HOU_RS00520 → putative lipoprotein
RA USA300TCH1516_ALE 217,036 T→A 5.6% intergenic (‑230/+23) rocD2_1 ← / ← brnQ_1 Ornithine aminotransferase 2/Branched‑chain amino acid transport system 2 carrier protein
RA USA300TCH1516_ALE 512,643 A→G 19.9% intergenic (+711/‑6052) recR → / → speA_2 Recombination protein RecR/Arginine decarboxylase
RA USA300TCH1516_ALE 618,657 T→C 6.6% D1253D (GAT→GAC sdrD → Serine‑aspartate repeat‑containing protein D
RA USA300TCH1516_ALE 740,322 G→C 6.7% intergenic (+549/+39) pitA_1 → / ← sle1_2 Low‑affinity inorganic phosphate transporter 1/N‑acetylmuramoyl‑L‑alanine amidase sle1
RA USA300TCH1516_ALE 1,416,458 A→T 100% I216N (ATT→AAT)  oppD_4 ← Oligopeptide transport ATP‑binding protein OppD
RA USA300TCH1516_ALE 1,435,065 C→G 7.6% A141G (GCT→GGT)  dapH → 2,3,4,5‑tetrahydropyridine‑2,6‑dicarboxylate N‑acetyltransferase
RA USA300TCH1516_ALE 1,513,930 A→T 100% L413F (TTA→TTT USA300HOU_RS07375 → hypothetical protein
RA USA300TCH1516_ALE 1,646,189 G→C 100% A155G (GCA→GGA)  ypdF ← Aminopeptidase YpdF
RA USA300TCH1516_ALE 1,857,867 C→T 6.4% L169L (TTG→TTA USA300HOU_RS09235 ← hypothetical protein
RA USA300TCH1516_ALE 1,987,374 A→C 6.7% intergenic (‑437/+340) USA300HOU_RS09895 ← / ← USA300HOU_RS09905 hypothetical protein/hypothetical protein
RA USA300TCH1516_ALE 2,010,363 C→T 100% C146Y (TGT→TAT)  USA300HOU_RS10125 ← Putative multidrug export ATP‑binding/permease protein
RA USA300TCH1516_ALE 2,211,248 A→T 7.4% intergenic (+241/+572) USA300HOU_RS11275 → / ← yidC hypothetical protein/Membrane protein insertase YidC
RA USA300TCH1516_ALE 2,243,494 A→T 5.3% intergenic (+72/+37) USA300HOU_RS11475 → / ← pyrG hypothetical protein/CTP synthase
RA USA300TCH1516_ALE 2,243,499 T→A 7.0% intergenic (+77/+32) USA300HOU_RS11475 → / ← pyrG hypothetical protein/CTP synthase
RA USA300TCH1516_ALE 2,243,504 A→T 5.4% intergenic (+82/+27) USA300HOU_RS11475 → / ← pyrG hypothetical protein/CTP synthase
RA USA300TCH1516_ALE 2,279,705 G→A 100% A943V (GCA→GTA)  ebh_3 ← Extracellular matrix‑binding protein ebh
RA USA300TCH1516_ALE 2,309,793:1 +G 5.6% coding (76/1032 nt) yfiZ_2 ← putative siderophore transport system permease protein YfiZ
RA USA300TCH1516_ALE 2,309,800 Δ1 bp 5.9% coding (69/1032 nt) yfiZ_2 ← putative siderophore transport system permease protein YfiZ
RA USA300TCH1516_ALE 2,372,407 A→G 5.1% intergenic (+158/+34) USA300TCH1516_02262 → / ← pbuG hypothetical protein/Guanine/hypoxanthine permease PbuG
RA USA300TCH1516_ALE 2,372,413 C→G 6.8% intergenic (+164/+28) USA300TCH1516_02262 → / ← pbuG hypothetical protein/Guanine/hypoxanthine permease PbuG
RA USA300TCH1516_ALE 2,372,419 C→T 5.8% intergenic (+170/+22) USA300TCH1516_02262 → / ← pbuG hypothetical protein/Guanine/hypoxanthine permease PbuG
RA USA300TCH1516_ALE 2,532,298 A→T 100% T15T (ACA→ACT femA_3 → Aminoacyltransferase FemA
RA USA300TCH1516_ALE 2,608,825 A→T 5.4% intergenic (+106/+154) USA300TCH1516_02485 → / ← USA300HOU_RS13450 hypothetical protein/hypothetical protein
RA USA300TCH1516_ALE 2,744,213 T→A 7.6% intergenic (+150/+43) fda → / ← mqo2 Fructose‑bisphosphate aldolase class 1/putative malate:quinone oxidoreductase 2
RA USA300TCH1516_ALE 2,744,226 T→C 5.5% intergenic (+163/+30) fda → / ← mqo2 Fructose‑bisphosphate aldolase class 1/putative malate:quinone oxidoreductase 2
RA USA300TCH1516_ALE 2,774,969 A→G 5.3% D739D (GAT→GAC clfB ← Clumping factor B
RA USA300TCH1516_ALE 2,774,975 A→G 6.1% D737D (GAT→GAC clfB ← Clumping factor B

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? CP000731 34 =387 (0.340)44 (0.040) 16/146 NT 8.5% intergenic (–/‑198) –/repA –/replication protein A
?CP000731 65 = 597 (0.580)intergenic (–/‑167) –/repA –/replication protein A
* ? CP000731 = 64674 (0.590)16 (0.020)
+33 bp
8/94 NT 7.5% intergenic (–/‑168) –/repA –/replication protein A
?CP000731 = 27041 0 (0.000)intergenic (‑194/–) USA300HOU_pUSA300HOUMR0033/– partitioning protein/–
* ? CP000731 = 4373310 (0.270)234 (0.050) 31/148 NT 21.6% intergenic (+338/‑127) USA300HOU_pUSA300HOUMR0006/cadR hypothetical protein/cadmium binding protein
?NC_012417 = 1986 1408 (0.170)intergenic (+219/+107) USA300HOU_RS14895/USA300HOU_RS14900 hypothetical protein/hypothetical protein
* ? CP000731 = 12916NA (NA)23 (0.020) 17/148 NT NA coding (410/675 nt) USA300HOU_pUSA300HOUMR0016 IS257 transposase
?CP000731 = 12919 NA (NA)coding (413/675 nt) USA300HOU_pUSA300HOUMR0016 IS257 transposase
* ? CP000731 16941 =NA (NA)23 (0.020) 10/148 NT 100% coding (121/675 nt) USA300HOU_pUSA300HOUMR0021 IS431 mec transposase
?CP000731 16948 = 0 (0.000)coding (114/675 nt) USA300HOU_pUSA300HOUMR0021 IS431 mec transposase
* ? CP000731 = 17001NA (NA)27 (0.030) 15/148 NT 100% coding (61/675 nt) USA300HOU_pUSA300HOUMR0021 IS431 mec transposase
?CP000731 = 17016 0 (0.000)coding (46/675 nt) USA300HOU_pUSA300HOUMR0021 IS431 mec transposase
* ? CP000731 17008 =NA (NA)24 (0.020) 17/148 NT 100% coding (54/675 nt) USA300HOU_pUSA300HOUMR0021 IS431 mec transposase
?CP000731 17011 = 0 (0.000)coding (51/675 nt) USA300HOU_pUSA300HOUMR0021 IS431 mec transposase
* ? NC_012417 = 9974013 (0.450)216 (0.030) 45/138 NT 5.9% intergenic (+9/+6) USA300HOU_RS14890/USA300HOU_RS15665 replication protein/hypothetical protein
?NC_012417 = 1001 3435 (0.440)intergenic (+13/+2) USA300HOU_RS14890/USA300HOU_RS15665 replication protein/hypothetical protein
* ? NC_012417 1993 =NA (NA)141 (0.020) 19/148 NT 7.0% intergenic (+226/+100) USA300HOU_RS14895/USA300HOU_RS14900 hypothetical protein/hypothetical protein
?NC_012417 2021 = 2029 (0.230)intergenic (+254/+72) USA300HOU_RS14895/USA300HOU_RS14900 hypothetical protein/hypothetical protein
* ? USA300TCH1516_ALE = 14186290 (1.010)16 (0.060) 14/142 NT 5.5% intergenic (+87/‑563) serS_1/ygaZ Serine‑‑tRNA ligase/Inner membrane protein YgaZ
?USA300TCH1516_ALE = 14200 292 (1.150)intergenic (+101/‑549) serS_1/ygaZ Serine‑‑tRNA ligase/Inner membrane protein YgaZ
* ? USA300TCH1516_ALE 36412 =191 (0.660)15 (0.060) 9/146 NT 7.9% coding (140/675 nt) USA300HOU_RS00140 hypothetical protein
?USA300TCH1516_ALE = 76356 NA (NA)coding (142/246 nt) USA300HOU_RS00140 hypothetical protein
* ? USA300TCH1516_ALE 42564 =341 (1.190)16 (0.070)
+TACATTATAAAATACATATC
8/120 NT 6.7% coding (1402/1524 nt) USA300TCH1516_00035 hypothetical protein
?USA300TCH1516_ALE = 2479065 251 (0.870)intergenic (+21/+119) USA300HOU_RS12765/hrtA_2 hypothetical protein/Putative hemin import ATP‑binding protein HrtA
* ? USA300TCH1516_ALE = 127978302 (1.050)16 (0.060) 10/144 NT 5.3% intergenic (+198/+131) lctP_1/spa L‑lactate permease/Immunoglobulin G‑binding protein A
?USA300TCH1516_ALE = 128000 301 (1.170)intergenic (+220/+109) lctP_1/spa L‑lactate permease/Immunoglobulin G‑binding protein A
* ? USA300TCH1516_ALE 161003 =335 (1.170)13 (0.060) 8/124 NT 5.7% intergenic (+17/+114) deoB/phnE_1 Phosphopentomutase/Phosphate‑import permease protein PhnE
?USA300TCH1516_ALE 161059 = 174 (0.780)intergenic (+73/+58) deoB/phnE_1 Phosphopentomutase/Phosphate‑import permease protein PhnE
* ? USA300TCH1516_ALE 221178 =281 (0.980)12 (0.050) 9/146 NT 5.1% intergenic (‑224/+50) ipdC/ptsG_1 Indole‑3‑pyruvate decarboxylase/PTS system glucose‑specific EIICBA component
?USA300TCH1516_ALE 221218 = 195 (0.740)intergenic (‑264/+10) ipdC/ptsG_1 Indole‑3‑pyruvate decarboxylase/PTS system glucose‑specific EIICBA component
* ? USA300TCH1516_ALE = 286957235 (0.820)19 (0.080) 10/140 NT 7.7% intergenic (+36/‑303) rihA/manR_1 Pyrimidine‑specific ribonucleoside hydrolase RihA/Transcriptional regulator ManR
?USA300TCH1516_ALE = 286973 252 (1.000)intergenic (+52/‑287) rihA/manR_1 Pyrimidine‑specific ribonucleoside hydrolase RihA/Transcriptional regulator ManR
* ? USA300TCH1516_ALE 318807 =83 (0.290)29 (0.110) 9/150 NT 32.6% intergenic (+170/‑58) USA300HOU_RS01425/USA300TCH1516_00272 hypothetical protein/hypothetical protein
?USA300TCH1516_ALE = 1443642 42 (0.160)intergenic (‑215/+138) USA300TCH1516_01342/brnQ_3 hypothetical protein/Branched‑chain amino acid transport system 2 carrier protein
* ? USA300TCH1516_ALE 365029 =235 (0.820)13 (0.050) 11/136 NT 5.7% intergenic (+39/+66) nupC_1/sglT Nucleoside permease NupC/Sodium/glucose cotransporter
?USA300TCH1516_ALE 365083 = 233 (0.960)intergenic (+93/+12) nupC_1/sglT Nucleoside permease NupC/Sodium/glucose cotransporter
* ? USA300TCH1516_ALE = 365040246 (0.860)15 (0.060) 10/136 NT 6.4% intergenic (+50/+55) nupC_1/sglT Nucleoside permease NupC/Sodium/glucose cotransporter
?USA300TCH1516_ALE = 365070 233 (0.960)intergenic (+80/+25) nupC_1/sglT Nucleoside permease NupC/Sodium/glucose cotransporter
* ? USA300TCH1516_ALE 399691 =297 (1.030)16 (0.060) 9/138 NT 6.5% coding (1712/1713 nt) efeU Ferrous iron permease EfeU
?USA300TCH1516_ALE 399718 = 206 (0.830)intergenic (+26/+66) efeU/tatC2 Ferrous iron permease EfeU/Sec‑independent protein translocase protein TatCy
* ? USA300TCH1516_ALE 513404 =NA (NA)23 (0.090) 14/148 NT NA intergenic (+1472/‑5291) recR/speA_2 Recombination protein RecR/Arginine decarboxylase
?USA300TCH1516_ALE 513421 = NA (NA)intergenic (+1489/‑5274) recR/speA_2 Recombination protein RecR/Arginine decarboxylase
* ? USA300TCH1516_ALE = 514606NA (NA)29 (0.110) 21/146 NT NA intergenic (+2674/‑4089) recR/speA_2 Recombination protein RecR/Arginine decarboxylase
?USA300TCH1516_ALE = 514610 NA (NA)intergenic (+2678/‑4085) recR/speA_2 Recombination protein RecR/Arginine decarboxylase
* ? USA300TCH1516_ALE 515124 =NA (NA)24 (0.090) 9/146 NT NA intergenic (+3192/‑3571) recR/speA_2 Recombination protein RecR/Arginine decarboxylase
?USA300TCH1516_ALE 515149 = NA (NA)intergenic (+3217/‑3546) recR/speA_2 Recombination protein RecR/Arginine decarboxylase
* ? USA300TCH1516_ALE = 515130NA (NA)18 (0.070) 8/146 NT NA intergenic (+3198/‑3565) recR/speA_2 Recombination protein RecR/Arginine decarboxylase
?USA300TCH1516_ALE = 515141 NA (NA)intergenic (+3209/‑3554) recR/speA_2 Recombination protein RecR/Arginine decarboxylase
* ? USA300TCH1516_ALE = 515917NA (NA)10 (0.040) 6/146 NT NA intergenic (+3985/‑2778) recR/speA_2 Recombination protein RecR/Arginine decarboxylase
?USA300TCH1516_ALE = 515920 NA (NA)intergenic (+3988/‑2775) recR/speA_2 Recombination protein RecR/Arginine decarboxylase
* ? USA300TCH1516_ALE = 515946NA (NA)7 (0.030) 6/146 NT NA intergenic (+4014/‑2749) recR/speA_2 Recombination protein RecR/Arginine decarboxylase
?USA300TCH1516_ALE = 515981 NA (NA)intergenic (+4049/‑2714) recR/speA_2 Recombination protein RecR/Arginine decarboxylase
* ? USA300TCH1516_ALE 516988 =NA (NA)32 (0.120) 16/146 NT NA intergenic (+5056/‑1707) recR/speA_2 Recombination protein RecR/Arginine decarboxylase
?USA300TCH1516_ALE 517013 = NA (NA)intergenic (+5081/‑1682) recR/speA_2 Recombination protein RecR/Arginine decarboxylase
* ? USA300TCH1516_ALE = 517212NA (NA)12 (0.050) 9/146 NT NA intergenic (+5280/‑1483) recR/speA_2 Recombination protein RecR/Arginine decarboxylase
?USA300TCH1516_ALE = 517229 NA (NA)intergenic (+5297/‑1466) recR/speA_2 Recombination protein RecR/Arginine decarboxylase
* ? USA300TCH1516_ALE 517277 =NA (NA)24 (0.090) 8/150 NT NA intergenic (+5345/‑1418) recR/speA_2 Recombination protein RecR/Arginine decarboxylase
?USA300TCH1516_ALE 517292 = NA (NA)intergenic (+5360/‑1403) recR/speA_2 Recombination protein RecR/Arginine decarboxylase
* ? USA300TCH1516_ALE 517440 =NA (NA)21 (0.080) 13/146 NT NA intergenic (+5508/‑1255) recR/speA_2 Recombination protein RecR/Arginine decarboxylase
?USA300TCH1516_ALE 517458 = NA (NA)intergenic (+5526/‑1237) recR/speA_2 Recombination protein RecR/Arginine decarboxylase
* ? USA300TCH1516_ALE = 557256NA (NA)33 (0.130) 13/142 NT NA intergenic (+314/‑1455) USA300TCH1516_00504/USA300TCH1516_00505 tRNA‑Ala/tRNA‑Ile
?USA300TCH1516_ALE = 557260 NA (NA)intergenic (+318/‑1451) USA300TCH1516_00504/USA300TCH1516_00505 tRNA‑Ala/tRNA‑Ile
* ? USA300TCH1516_ALE 646656 =325 (1.130)14 (0.060) 10/140 NT 5.1% intergenic (+10/‑577) lipL/galK Octanoyl‑[GcvH]:protein N‑octanoyltransferase/Galactokinase
?USA300TCH1516_ALE 646692 = 237 (0.940)intergenic (+46/‑541) lipL/galK Octanoyl‑[GcvH]:protein N‑octanoyltransferase/Galactokinase
* ? USA300TCH1516_ALE 671666 =167 (0.580)10 (0.040) 3/142 NT 5.9% intergenic (+291/‑97) argS/nth_1 Arginine‑‑tRNA ligase/Endonuclease III
?USA300TCH1516_ALE = 891718 170 (0.670)intergenic (+136/‑603) USA300HOU_RS04385/rnmV_2 hypothetical protein/Ribonuclease M5
* ? USA300TCH1516_ALE = 710532299 (1.040)16 (0.060) 11/142 NT 5.7% intergenic (+25/+36) tarA/tagH_1 N‑acetylglucosaminyldiphosphoundecaprenol N‑acetyl‑beta‑D‑mannosaminyltransferase/Teichoic acids export ATP‑binding protein TagH
?USA300TCH1516_ALE = 710552 264 (1.040)intergenic (+45/+16) tarA/tagH_1 N‑acetylglucosaminyldiphosphoundecaprenol N‑acetyl‑beta‑D‑mannosaminyltransferase/Teichoic acids export ATP‑binding protein TagH
* ? USA300TCH1516_ALE 760026 =292 (1.020)18 (0.080) 12/132 NT 8.2% coding (1674/1674 nt) USA300HOU_RS03705 Putative multidrug export ATP‑binding/permease protein
?USA300TCH1516_ALE 760070 = 162 (0.690)intergenic (+44/+83) USA300HOU_RS03705/mgrA Putative multidrug export ATP‑binding/permease protein/HTH‑type transcriptional regulator MgrA
* ? USA300TCH1516_ALE 805359 =275 (0.960)12 (0.050) 7/126 NT 6.2% intergenic (‑284/+57) dtpT/queF Di‑/tripeptide transporter/NADPH‑dependent 7‑cyano‑7‑deazaguanine reductase
?USA300TCH1516_ALE 805402 = 146 (0.650)intergenic (‑327/+14) dtpT/queF Di‑/tripeptide transporter/NADPH‑dependent 7‑cyano‑7‑deazaguanine reductase
* ? USA300TCH1516_ALE 854380 =268 (0.930)16 (0.060) 15/148 NT 5.9% intergenic (‑275/‑460) USA300HOU_RS04170/zipA_1 Epimerase family protein/Cell division protein ZipA
?USA300TCH1516_ALE 854405 = 263 (0.990)intergenic (‑300/‑435) USA300HOU_RS04170/zipA_1 Epimerase family protein/Cell division protein ZipA
* ? USA300TCH1516_ALE = 1058109220 (0.770)19 (0.070) 12/144 NT 8.2% intergenic (+150/+57) slyA_2/atl_1 Transcriptional regulator SlyA/Bifunctional autolysin
?USA300TCH1516_ALE = 1058143 225 (0.870)intergenic (+184/+23) slyA_2/atl_1 Transcriptional regulator SlyA/Bifunctional autolysin
* ? USA300TCH1516_ALE = 1120568239 (0.830)15 (0.060) 10/148 NT 6.1% coding (56/276 nt) USA300HOU_RS05550 hypothetical protein
?USA300TCH1516_ALE = 1120580 243 (0.920)coding (68/276 nt) USA300HOU_RS05550 hypothetical protein
* ? USA300TCH1516_ALE = 1166913254 (0.880)17 (0.070) 9/144 NT 6.2% intergenic (+29/‑230) USA300HOU_RS05790/fib_2 hypothetical protein/Fibrinogen‑binding protein
?USA300TCH1516_ALE = 1166922 283 (1.100)intergenic (+38/‑221) USA300HOU_RS05790/fib_2 hypothetical protein/Fibrinogen‑binding protein
* ? USA300TCH1516_ALE 1181842 =245 (0.850)13 (0.050) 8/144 NT 6.1% intergenic (+409/+65) USA300HOU_RS05885/USA300TCH1516_01103 hypothetical protein/tRNA‑Arg
?USA300TCH1516_ALE 1181881 = 178 (0.690)intergenic (+448/+26) USA300HOU_RS05885/USA300TCH1516_01103 hypothetical protein/tRNA‑Arg
* ? USA300TCH1516_ALE = 1205323267 (0.930)25 (0.100)
+AGCGAAGCC
10/142 NT 9.6% intergenic (‑204/‑365) USA300HOU_RS15290/lspA hypothetical protein/Lipoprotein signal peptidase
?USA300TCH1516_ALE = 1443685 NA (NA)intergenic (‑258/+95) USA300TCH1516_01342/brnQ_3 hypothetical protein/Branched‑chain amino acid transport system 2 carrier protein
* ? USA300TCH1516_ALE = 1457718NA (NA)22 (0.090) 13/138 NT NA intergenic (+103/+28) USA300HOU_RS07235/ybjG hypothetical protein/Putative undecaprenyl‑diphosphatase YbjG
?USA300TCH1516_ALE = 1457722 NA (NA)intergenic (+107/+24) USA300HOU_RS07235/ybjG hypothetical protein/Putative undecaprenyl‑diphosphatase YbjG
* ? USA300TCH1516_ALE = 1657692205 (0.710)10 (0.040) 9/130 NT 5.0% intergenic (‑15/+37) comGA/USA300HOU_RS08250 ComG operon protein 1/putative metallo‑hydrolase
?USA300TCH1516_ALE = 1657702 210 (0.900)intergenic (‑25/+27) comGA/USA300HOU_RS08250 ComG operon protein 1/putative metallo‑hydrolase
* ? USA300TCH1516_ALE = 1841996219 (0.760)12 (0.050) 9/134 NT 5.6% intergenic (+36/+58) htrA/tyrS Serine protease Do‑like HtrA/Tyrosine‑‑tRNA ligase
?USA300TCH1516_ALE = 1842015 225 (0.940)intergenic (+55/+39) htrA/tyrS Serine protease Do‑like HtrA/Tyrosine‑‑tRNA ligase
* ? USA300TCH1516_ALE = 2031786266 (0.930)12 (0.060)
+22 bp
6/116 NT 5.8% intergenic (+252/+238) USA300HOU_RS10250/USA300HOU_RS10255 hypothetical protein/hypothetical protein
?USA300TCH1516_ALE = 2866873 272 (0.950)intergenic (‑272/+181) USA300HOU_RS14695/noc_2 hypothetical protein/Nucleoid occlusion protein
* ? USA300TCH1516_ALE 2062959 =321 (1.120)13 (0.050) 7/132 NT 5.3% intergenic (+40/+150) pheA/sdcS P‑protein/Sodium‑dependent dicarboxylate transporter SdcS
?USA300TCH1516_ALE 2063001 = 198 (0.840)intergenic (+82/+108) pheA/sdcS P‑protein/Sodium‑dependent dicarboxylate transporter SdcS
* ? USA300TCH1516_ALE = 2102579220 (0.770)14 (0.050) 9/146 NT 6.2% intergenic (‑39/+277) USA300HOU_RS10625/USA300HOU_RS10630 hypothetical protein/hypothetical protein
?USA300TCH1516_ALE = 2102583 220 (0.840)intergenic (‑43/+273) USA300HOU_RS10625/USA300HOU_RS10630 hypothetical protein/hypothetical protein
* ? USA300TCH1516_ALE 2207841 =283 (0.980)15 (0.060) 9/142 NT 6.0% intergenic (+202/+62) rodA/USA300HOU_RS11255 Peptidoglycan glycosyltransferase RodA/hypothetical protein
?USA300TCH1516_ALE 2207874 = 221 (0.870)intergenic (+235/+29) rodA/USA300HOU_RS11255 Peptidoglycan glycosyltransferase RodA/hypothetical protein
* ? USA300TCH1516_ALE 2256396 =283 (0.980)13 (0.050) 6/132 NT 6.0% intergenic (+49/+72) deoD1/dps Purine nucleoside phosphorylase DeoD‑type 1/General stress protein 20U
?USA300TCH1516_ALE 2256443 = 172 (0.730)intergenic (+96/+25) deoD1/dps Purine nucleoside phosphorylase DeoD‑type 1/General stress protein 20U
* ? USA300TCH1516_ALE = 2440052206 (0.720)12 (0.050) 7/136 NT 6.1% intergenic (+13/+53) USA300HOU_RS12570/malP hypothetical protein/PTS system maltose‑specific EIICB component
?USA300TCH1516_ALE = 2440086 196 (0.800)intergenic (+47/+19) USA300HOU_RS12570/malP hypothetical protein/PTS system maltose‑specific EIICB component
* ? USA300TCH1516_ALE 2442806 =216 (0.750)10 (0.040) 8/128 NT 5.2% intergenic (+3/+55) glvR/USA300HOU_RS12585 HTH‑type transcriptional regulator GlvR/hypothetical protein
?USA300TCH1516_ALE 2442855 = 191 (0.830)intergenic (+52/+6) glvR/USA300HOU_RS12585 HTH‑type transcriptional regulator GlvR/hypothetical protein
* ? USA300TCH1516_ALE = 2442821232 (0.810)10 (0.040) 8/128 NT 5.1% intergenic (+18/+40) glvR/USA300HOU_RS12585 HTH‑type transcriptional regulator GlvR/hypothetical protein
?USA300TCH1516_ALE = 2442838 191 (0.830)intergenic (+35/+23) glvR/USA300HOU_RS12585 HTH‑type transcriptional regulator GlvR/hypothetical protein
* ? USA300TCH1516_ALE 2483085 =346 (1.200)20 (0.080) 11/136 NT 6.8% intergenic (+5/‑158) hssS/USA300HOU_RS12790 Heme sensor protein HssS/putative HTH‑type transcriptional regulator
?USA300TCH1516_ALE 2483126 = 256 (1.050)intergenic (+46/‑117) hssS/USA300HOU_RS12790 Heme sensor protein HssS/putative HTH‑type transcriptional regulator
* ? USA300TCH1516_ALE 2492466 =299 (1.040)17 (0.070) 10/138 NT 6.5% intergenic (+9/+37) yhfP/rimI_4 Putative quinone oxidoreductase YhfP/Ribosomal‑protein‑alanine acetyltransferase
?USA300TCH1516_ALE 2492499 = 233 (0.940)intergenic (+42/+4) yhfP/rimI_4 Putative quinone oxidoreductase YhfP/Ribosomal‑protein‑alanine acetyltransferase
* ? USA300TCH1516_ALE = 2541819263 (0.920)15 (0.060) 10/136 NT 5.6% intergenic (+78/‑422) sbi/hlgA Immunoglobulin‑binding protein sbi/Gamma‑hemolysin component A
?USA300TCH1516_ALE = 2541837 280 (1.150)intergenic (+96/‑404) sbi/hlgA Immunoglobulin‑binding protein sbi/Gamma‑hemolysin component A
* ? USA300TCH1516_ALE = 2555354249 (0.870)19 (0.070) 6/142 NT 7.8% intergenic (‑325/+544) irtA/yfdG Iron import ATP‑binding/permease protein IrtA/Prophage bactoprenol‑linked glucose translocase
?USA300TCH1516_ALE = 2555358 231 (0.910)intergenic (‑329/+540) irtA/yfdG Iron import ATP‑binding/permease protein IrtA/Prophage bactoprenol‑linked glucose translocase
* ? USA300TCH1516_ALE 2561201 =247 (0.860)13 (0.050) 11/132 NT 6.7% intergenic (+30/+33) USA300HOU_RS13195/cpdA hypothetical protein/3',5'‑cyclic adenosine monophosphate phosphodiesterase CpdA
?USA300TCH1516_ALE 2561237 = 159 (0.670)coding (804/807 nt) cpdA 3',5'‑cyclic adenosine monophosphate phosphodiesterase CpdA
* ? USA300TCH1516_ALE 2863041 =262 (0.910)15 (0.060) 11/142 NT 5.9% intergenic (+11/+49) USA300TCH1516_02707/USA300HOU_RS14670 hypothetical protein/hypothetical protein
?USA300TCH1516_ALE 2863075 = 249 (0.980)intergenic (+45/+15) USA300TCH1516_02707/USA300HOU_RS14670 hypothetical protein/hypothetical protein