mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | position | mutation | freq | annotation | gene | description |
| RA | 203,857 | G→T | 7.6% | E749* (GAG→TAG) | dnaE → | DNA polymerase III alpha subunit |
| RA | 244,782:1 | +G | 8.9% | intergenic (+161/+63) | rayT → / ← lfhA | RAYT REP element‑mobilizing transposase; TnpA(REP)/pseudogene, flagellar system protein, promoterless fragment; flagellar biosynthesis |
| RA | 372,930 | C→T | 5.5% | intergenic (+163/+61) | yaiL → / ← frmB | DUF2058 family protein/S‑formylglutathione hydrolase |
| RA | 372,934 | C→T | 5.4% | intergenic (+167/+57) | yaiL → / ← frmB | DUF2058 family protein/S‑formylglutathione hydrolase |
| RA | 602,762 | C→A | 12.2% | P26P (CCG→CCT) | ybdK ← | weak gamma‑glutamyl:cysteine ligase |
| RA | 731,010 | C→A | 7.0% | pseudogene (1422/1521 nt) | rhsO → | pseudogene, Rhs family protein |
| RA | 733,570 | A→G | 5.5% | E8G (GAA→GGA) | ybfD → | H repeat‑associated putative transposase |
| JC JC | 982,319 | IS2 (+) +5 bp | 100% | coding (116‑120/1089 nt) | ompF ← | outer membrane porin 1a (Ia;b;F) |
| RA | 1,047,275 | Δ1 bp | 7.3% | intergenic (+146/‑28) | cspG → / → ymcE | cold shock protein homolog, cold‑inducible/cold shock gene |
| RA | 1,143,601 | T→C | 11.4% | I175I (ATT→ATC) | plsX → | putative phosphate acyltransferase |
| RA | 1,205,402 | C→A | 8.7% | R88S (CGT→AGT) | pinE → | e14 prophage; site‑specific DNA recombinase |
| RA | 1,316,131 | T→C | 11.9% | E358G (GAG→GGG) | trpE ← | component I of anthranilate synthase |
| RA | 1,497,170 | A→T | 14.8% | M153L (ATG→TTG) | ydcL → | lipoprotein |
| RA | 1,885,926 | C→A | 12.2% | E523* (GAA→TAA) | yoaA ← | putative ATP‑dependent helicase, DinG family |
| RA | 1,936,504 | G→T | 13.8% | L113I (CTA→ATA) | znuA ← | zinc transporter subunit: periplasmic‑binding component of ABC superfamily |
| RA | 1,943,314 | C→A | 14.9% | R489L (CGT→CTT) | aspS ← | aspartyl‑tRNA synthetase |
| RA | 2,196,413 | C→A | 14.8% | R886S (CGC→AGC) | yehI → | DUF4132 domain‑containing protein |
| RA | 2,298,393 | A→G | 16.8% | intergenic (+521/+194) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,598,891 | G→T | 8.4% | S241I (AGC→ATC) | hyfD → | hydrogenase 4, membrane subunit |
| RA | 2,684,840 | G→T | 8.7% | intergenic (‑141/+175) | glmY ← / ← purL | sRNA activator of glmS mRNA, glmZ processing antagonist/phosphoribosylformyl‑glycineamide synthetase |
| RA | 2,820,787 | C→A | 11.2% | Q23K (CAG→AAG) | srlB → | glucitol/sorbitol‑specific enzyme IIA component of PTS |
| RA | 3,171,890 | G→A | 9.2% | L139L (TTG→TTA) | tolC → | transport channel |
| RA | 3,366,567 | C→A | 5.2% | R123R (CGG→CGT) | nanA ← | N‑acetylneuraminate lyase |
| RA | 3,377,782 | A→G | 9.7% | intergenic (‑155/‑280) | mdh ← / → argR | malate dehydrogenase, NAD(P)‑binding/l‑arginine‑responsive arginine metabolism regulon transcriptional regulator |
| RA | 3,444,753 | G→A | 7.5% | G97G (GGC→GGT) | rplW ← | 50S ribosomal subunit protein L23 |
| RA | 3,445,458 | T→G | 100% | K63T (AAA→ACA) | rplD ← | 50S ribosomal subunit protein L4 |
| RA | 3,912,731 | G→T | 100% | Q163K (CAG→AAG) | atpA ← | F1 sector of membrane‑bound ATP synthase, alpha subunit |
| RA | 3,921,929 | C→T | 8.4% | L345L (CTG→CTA) | viaA ← | stimulator of RavA ATPase activity; von Willebrand factor domain protein |
| RA | 3,979,794 | A→G | 5.8% | noncoding (3/207 nt) | glmZ → | sRNA antisense activator of glmS mRNA, Hfq‑dependent |
| MC JC | 4,175,921 | Δ18 bp | 100% | coding (644‑661/4224 nt) | rpoC → | RNA polymerase, beta prime subunit |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | CP009273 | 957462 | 957500 | 39 | 5 [4] | [4] 5 | rpsA | 30S ribosomal subunit protein S1 |
| * | * | ÷ | CP009273 | 2101597 | 2101620 | 24 | 5 [4] | [3] 5 | glf | UDP‑galactopyranose mutase, FAD/NAD(P)‑binding |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | = 112279 | 47 (1.170) | 3 (0.080) | 3/304 | NT | 6.4% | coding (1308/1386 nt) | hofB | T2SE secretion family protein; P‑loop ATPase superfamily protein |
| ? | CP009273 | = 112436 | 42 (1.070) | coding (1151/1386 nt) | hofB | T2SE secretion family protein; P‑loop ATPase superfamily protein | |||||
| * | ? | CP009273 | = 158043 | 45 (1.120) | 4 (0.110) | 3/294 | NT | 8.0% | coding (476/531 nt) | ligT | 2'‑5' RNA ligase |
| ? | CP009273 | = 158600 | 49 (1.290) | coding (9/2430 nt) | hrpB | putative ATP‑dependent helicase | |||||
| * | ? | CP009273 | 190667 = | 24 (0.600) | 3 (0.080) | 3/292 | NT | 10.4% | coding (660/1197 nt) | dxr | 1‑deoxy‑D‑xylulose 5‑phosphate reductoisomerase |
| ? | CP009273 | 190874 = | 29 (0.770) | coding (867/1197 nt) | dxr | 1‑deoxy‑D‑xylulose 5‑phosphate reductoisomerase | |||||
| * | ? | CP009273 | = 197680 | 40 (1.000) | 5 (0.130) | 4/292 | NT | 9.4% | coding (223/1026 nt) | lpxD | UDP‑3‑O‑(3‑hydroxymyristoyl)‑glucosamine N‑acyltransferase |
| ? | CP009273 | = 197761 | 59 (1.560) | coding (304/1026 nt) | lpxD | UDP‑3‑O‑(3‑hydroxymyristoyl)‑glucosamine N‑acyltransferase | |||||
| * | ? | CP009273 | = 264675 | 50 (1.250) | 7 (0.180) | 4/294 | NT | 15.1% | intergenic (‑4/+325) | ykfA/perR | CP4‑6 prophage; putative GTP‑binding protein/CP4‑6 prophage; putative DNA‑binding transcriptional regulator |
| ? | CP009273 | = 264741 | 31 (0.810) | intergenic (‑70/+259) | ykfA/perR | CP4‑6 prophage; putative GTP‑binding protein/CP4‑6 prophage; putative DNA‑binding transcriptional regulator | |||||
| * | ? | CP009273 | 266252 = | NA (NA) | 29 (0.720) | 27/310 | NT | 100% | intergenic (+6/‑62) | insN/insI1 | pseudogene, IS911 transposase A;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related/IS30 transposase |
| ? | CP009273 | = 879010 | 0 (0.000) | intergenic (‑166/‑119) | ybjG/mdfA | undecaprenyl pyrophosphate phosphatase/multidrug efflux system protein | |||||
| * | ? | CP009273 | 270925 = | 39 (0.970) | 3 (0.080) | 3/286 | NT | 7.4% | noncoding (385/1221 nt) | IS30 | repeat region |
| ? | CP009273 | 271602 = | 39 (1.050) | noncoding (1062/1221 nt) | IS30 | repeat region | |||||
| * | ? | CP009273 | = 272148 | NA (NA) | 7 (0.190) | 3/290 | NT | 11.3% | noncoding (387/429 nt) | IS911 | repeat region |
| ? | CP009273 | = 272562 | 55 (1.460) | coding (137/933 nt) | mmuM | CP4‑6 prophage; S‑methylmethionine:homocysteine methyltransferase | |||||
| * | ? | CP009273 | 311145 = | NA (NA) | 4 (0.100) | 4/298 | NT | NA | coding (144/300 nt) | insE1 | IS3 transposase A |
| ? | CP009273 | 311230 = | NA (NA) | coding (229/300 nt) | insE1 | IS3 transposase A | |||||
| * | ? | CP009273 | = 351197 | 32 (0.800) | 4 (0.100) | 4/296 | NT | 11.8% | coding (565/1260 nt) | codB | cytosine transporter |
| ? | CP009273 | = 351248 | 29 (0.760) | coding (616/1260 nt) | codB | cytosine transporter | |||||
| * | ? | CP009273 | 360104 = | 36 (0.900) | 46 (1.150) | 35/310 | NT | 60.5% | intergenic (‑38/+557) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor |
| ? | CP009273 | = 360286 | 24 (0.600) | intergenic (‑220/+375) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor | |||||
| * | ? | CP009273 | = 367213 | NA (NA) | 43 (1.070) | 33/310 | NT | 100% | noncoding (1223/1223 nt) | IS30 | repeat region |
| ? | CP009273 | 879009 = | 0 (0.000) | intergenic (‑165/‑120) | ybjG/mdfA | undecaprenyl pyrophosphate phosphatase/multidrug efflux system protein | |||||
| * | ? | CP009273 | = 370616 | 37 (0.920) | 7 (0.180) +T |
5/308 | NT | 16.0% | noncoding (231/436 nt) | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | CP009273 | = 372947 | NA (NA) | noncoding (157/187 nt) | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | |||||
| * | ? | CP009273 | 376981 = | NA (NA) | 6 (0.150) | 4/302 | NT | NA | coding (175/366 nt) | insC1 | IS2 repressor TnpA |
| ? | CP009273 | 377637 = | NA (NA) | coding (508/906 nt) | insD1 | IS2 transposase TnpB | |||||
| * | ? | CP009273 | = 378046 | NA (NA) | 41 (1.020) | 35/310 | NT | 100% | intergenic (+11/+1) | insD1/yaiX | IS2 transposase TnpB/pseudogene, interrupted by IS2A, acetyltransferase homolog; nonfunctional; interruped by IS2; putative transferase |
| ? | CP009273 | = 481167 | 0 (0.000) | intergenic (‑92/‑50) | acrA/acrR | multidrug efflux system/transcriptional repressor | |||||
| * | ? | CP009273 | = 403741 | 56 (1.400) | 4 (0.110) | 4/294 | NT | 7.1% | coding (109/285 nt) | yaiE | UPF0345 family protein |
| ? | CP009273 | = 403819 | 51 (1.340) | coding (187/285 nt) | yaiE | UPF0345 family protein | |||||
| * | ? | CP009273 | 409554 = | 48 (1.200) | 5 (0.130) | 4/294 | NT | 10.3% | coding (1656/3147 nt) | sbcC | exonuclease, dsDNA, ATP‑dependent |
| ? | CP009273 | 409696 = | 42 (1.100) | coding (1514/3147 nt) | sbcC | exonuclease, dsDNA, ATP‑dependent | |||||
| * | ? | CP009273 | 421765 = | 49 (1.220) | 5 (0.130) | 3/294 | NT | 11.6% | coding (173/1128 nt) | tgt | tRNA‑guanine transglycosylase |
| ? | CP009273 | 421843 = | 30 (0.790) | coding (251/1128 nt) | tgt | tRNA‑guanine transglycosylase | |||||
| * | ? | CP009273 | = 432418 | 15 (0.370) | 4 (0.100) | 4/296 | NT | 14.7% | coding (374/519 nt) | pgpA | phosphatidylglycerophosphatase A |
| ? | CP009273 | = 432689 | 32 (0.840) | coding (903/975 nt) | yajO | 2‑carboxybenzaldehyde reductase | |||||
| * | ? | CP009273 | 481163 = | 0 (0.000) | 32 (0.800) | 30/310 | NT | 100% | intergenic (‑88/‑54) | acrA/acrR | multidrug efflux system/transcriptional repressor |
| ? | CP009273 | = 1463497 | NA (NA) | noncoding (1/1331 nt) | IS2 | repeat region | |||||
| * | ? | CP009273 | 501973 = | 37 (0.920) | 4 (0.100) | 3/298 | NT | 10.1% | coding (1604/1653 nt) | ushA | bifunctional UDP‑sugar hydrolase/5'‑nucleotidase |
| ? | CP009273 | 502307 = | 36 (0.930) | coding (232/480 nt) | ybaK | Cys‑tRNA(Pro)/Cys‑tRNA(Cys) deacylase | |||||
| * | ? | CP009273 | = 532250 | 42 (1.050) | 4 (0.110) | 4/294 | NT | 8.3% | coding (209/879 nt) | glxR | tartronate semialdehyde reductase, NADH‑dependent |
| ? | CP009273 | = 532756 | 49 (1.290) | coding (715/879 nt) | glxR | tartronate semialdehyde reductase, NADH‑dependent | |||||
| * | ? | CP009273 | = 551289 | 39 (0.970) | 3 (0.080) | 3/278 | NT | 7.3% | coding (1223/1386 nt) | cysS | cysteinyl‑tRNA synthetase |
| ? | CP009273 | = 552240 | 41 (1.140) | coding (90/213 nt) | ybcJ | ribosome‑associated protein; putative RNA‑binding protein | |||||
| * | ? | CP009273 | 603489 = | NA (NA) | 9 (0.270) | 5/258 | NT | 33.0% | intergenic (+45/‑32) | hokE/insL1 | toxic polypeptide, small/IS186 transposase |
| ? | CP009273 | 604782 = | 22 (0.550) | intergenic (+149/+133) | insL1/entD | IS186 transposase/phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex | |||||
| * | ? | CP009273 | 703315 = | 11 (0.270) | 4 (0.110) | 3/294 | NT | 13.7% | noncoding (90/165 nt) | RIP63 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | RIP63 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site |
| ? | CP009273 | 3505933 = | 40 (1.050) | noncoding (64/90 nt) | REP250 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP250 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | CP009273 | = 707174 | 43 (1.070) | 5 (0.130) | 4/302 | NT | 12.5% | coding (181/294 nt) | ybfE | LexA‑regulated protein, CopB family |
| ? | CP009273 | = 707471 | 28 (0.720) | intergenic (‑117/+23) | ybfE/ybfF | LexA‑regulated protein, CopB family/acyl‑CoA esterase | |||||
| * | ? | CP009273 | = 719119 | 38 (0.950) | 3 (0.080) | 3/294 | NT | 7.3% | coding (752/2685 nt) | kdpD | fused sensory histidine kinase in two‑component regulatory system with KdpE: signal sensing protein |
| ? | CP009273 | = 719181 | 40 (1.050) | coding (690/2685 nt) | kdpD | fused sensory histidine kinase in two‑component regulatory system with KdpE: signal sensing protein | |||||
| * | ? | CP009273 | = 814223 | 26 (0.650) | 4 (0.110) | 3/290 | NT | 14.0% | coding (198/486 nt) | moaC | molybdopterin biosynthesis, protein C |
| ? | CP009273 | = 814331 | 25 (0.670) | coding (306/486 nt) | moaC | molybdopterin biosynthesis, protein C | |||||
| * | ? | CP009273 | 843477 = | 28 (0.700) | 7 (0.180) | 5/296 | NT | 16.3% | intergenic (‑17/+387) | glnH/dps | glutamine transporter subunit/Fe‑binding and storage protein; stress‑inducible DNA‑binding protetin |
| ? | CP009273 | 843724 = | 45 (1.170) | intergenic (‑264/+140) | glnH/dps | glutamine transporter subunit/Fe‑binding and storage protein; stress‑inducible DNA‑binding protetin | |||||
| * | ? | CP009273 | = 895186 | 38 (0.950) | 7 (0.200) | 4/272 | NT | 21.8% | noncoding (35/98 nt) | RIP82 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP82 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | CP009273 | = 896203 | 17 (0.480) | intergenic (‑172/+119) | artJ/artM | arginine binding protein, periplasmic/arginine transporter subunit | |||||
| * | ? | CP009273 | 1032410 = | 38 (0.950) | 4 (0.110) | 4/292 | NT | 9.4% | coding (206/858 nt) | hyaF | protein involved in nickel incorporation into hydrogenase‑1 proteins |
| ? | CP009273 | 1033576 = | 41 (1.080) | coding (381/1545 nt) | cbdA | cytochrome bd‑II oxidase, subunit I | |||||
| * | ? | CP009273 | 1124436 = | 31 (0.770) | 8 (0.210) | 5/292 | NT | 26.6% | coding (1142/1536 nt) | murJ | putative peptidoglycan lipid II flippase |
| ? | CP009273 | 1124498 = | 15 (0.400) | coding (1204/1536 nt) | murJ | putative peptidoglycan lipid II flippase | |||||
| * | ? | CP009273 | 1130290 = | 60 (1.500) | 6 (0.150) | 4/304 | NT | 9.8% | coding (106/783 nt) | flgG | flagellar component of cell‑distal portion of basal‑body rod |
| ? | CP009273 | 1130906 = | 51 (1.300) | coding (722/783 nt) | flgG | flagellar component of cell‑distal portion of basal‑body rod | |||||
| * | ? | CP009273 | 1196562 = | 41 (1.020) | 4 (0.110) | 3/278 | NT | 11.0% | intergenic (‑74/‑391) | xisE/ymfI | e14 prophage; putative excisionase/e14 prophage; uncharacterized protein |
| ? | CP009273 | 1196651 = | 28 (0.780) | intergenic (‑163/‑302) | xisE/ymfI | e14 prophage; putative excisionase/e14 prophage; uncharacterized protein | |||||
| * | ? | CP009273 | 1321351 = | 35 (0.870) | 3 (0.080) | 3/292 | NT | 7.6% | coding (243/876 nt) | rluB | 23S rRNA pseudouridine(2605) synthase |
| ? | CP009273 | 1321756 = | 40 (1.060) | coding (648/876 nt) | rluB | 23S rRNA pseudouridine(2605) synthase | |||||
| * | ? | CP009273 | = 1397368 | 22 (0.550) | 5 (0.130) | 5/290 | NT | 18.3% | coding (145/1446 nt) | abgB | p‑aminobenzoyl‑glutamate hydrolase, B subunit |
| ? | CP009273 | = 1398274 | 24 (0.640) | coding (549/1311 nt) | abgA | p‑aminobenzoyl‑glutamate hydrolase, A subunit | |||||
| * | ? | CP009273 | 1413126 = | 55 (1.370) | 22 (0.570) | 8/298 | NT | 29.0% | coding (199/489 nt) | sieB | Rac prophage; phage superinfection exclusion protein |
| ? | CP009273 | 1413206 = | 55 (1.430) | coding (279/489 nt) | sieB | Rac prophage; phage superinfection exclusion protein | |||||
| * | ? | CP009273 | = 1422232 | 36 (0.900) | 3 (0.080) | 3/292 | NT | 7.8% | noncoding (820/1196 nt) | IS5 | repeat region |
| ? | CP009273 | = 1422351 | 37 (0.980) | noncoding (701/1196 nt) | IS5 | repeat region | |||||
| * | ? | CP009273 | = 1441334 | 35 (0.870) | 4 (0.100) | 4/298 | NT | 10.3% | coding (207/906 nt) | feaR | transcriptional activator for tynA and feaB |
| ? | CP009273 | = 1441385 | 36 (0.930) | coding (156/906 nt) | feaR | transcriptional activator for tynA and feaB | |||||
| * | ? | CP009273 | = 1775228 | 15 (0.370) | 3 (0.080) | 3/294 | NT | 19.9% | coding (571/939 nt) | ydiR | putative electron transfer flavoprotein, FAD‑binding subunit |
| ? | CP009273 | = 1775292 | 10 (0.260) | coding (635/939 nt) | ydiR | putative electron transfer flavoprotein, FAD‑binding subunit | |||||
| * | ? | CP009273 | = 1788762 | 49 (1.220) | 4 (0.110) | 4/290 | NT | 9.1% | coding (648/981 nt) | btuC | vitamin B12 transporter subunit: membrane component of ABC superfamily |
| ? | CP009273 | = 1789289 | 34 (0.910) | coding (121/981 nt) | btuC | vitamin B12 transporter subunit: membrane component of ABC superfamily | |||||
| * | ? | CP009273 | 2065000 = | 28 (0.700) | 3 (0.080) | 3/304 | NT | 8.3% | intergenic (+1/‑20) | isrC/flu | novel sRNA, CP4‑44; putative prophage remnant/CP4‑44 prophage; antigen 43 (Ag43) phase‑variable biofilm formation autotransporter |
| ? | CP009273 | 2065385 = | 39 (0.990) | coding (366/3120 nt) | flu | CP4‑44 prophage; antigen 43 (Ag43) phase‑variable biofilm formation autotransporter | |||||
| * | ? | CP009273 | = 2071714 | 34 (0.850) | 6 (0.160) | 5/292 | NT | 15.0% | intergenic (+126/+316) | yeeW/yoeD | CP4‑44 prophage; uncharacterized protein;Phage or Prophage Related/pseudogene, CP4‑44 putative prophage remnant;Phage or Prophage Related |
| ? | CP009273 | = 2072110 | 36 (0.950) | pseudogene (49/129 nt) | yoeD | pseudogene, CP4‑44 putative prophage remnant;Phage or Prophage Related | |||||
| * | ? | CP009273 | = 2209206 | 65 (1.620) | 14 (0.360) | 5/302 | NT | 19.4% | coding (71/108 nt) | yohO | putative membrane protein |
| ? | CP009273 | = 2209278 | 53 (1.360) | coding (678/732 nt) | yehW | inner membrane putative ABC superfamily transporter permease | |||||
| * | ? | CP009273 | 2225182 = | 73 (1.820) | 4 (0.110) | 3/294 | NT | 6.6% | coding (685/696 nt) | yohK | LrgB family inner membrane protein |
| ? | CP009273 | 2225304 = | 44 (1.160) | intergenic (+111/‑19) | yohK/cdd | LrgB family inner membrane protein/cytidine/deoxycytidine deaminase | |||||
| * | ? | CP009273 | = 2284708 | 48 (1.200) | 10 (0.260) | 5/296 | NT | 17.3% | noncoding (77/199 nt) | RIP160 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site | RIP160 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site |
| ? | CP009273 | = 2284743 | 50 (1.300) | noncoding (112/199 nt) | RIP160 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site | RIP160 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site | |||||
| * | ? | CP009273 | = 2322526 | 33 (0.820) | 6 (0.160) | 4/292 | NT | 15.8% | coding (751/1650 nt) | yfaQ | tandem DUF2300 domain protein, putative host defense protein |
| ? | CP009273 | = 2322885 | 33 (0.870) | coding (392/1650 nt) | yfaQ | tandem DUF2300 domain protein, putative host defense protein | |||||
| * | ? | CP009273 | 2340639 = | NA (NA) | 4 (0.110) | 4/292 | NT | 13.1% | noncoding (1/203 nt) | REP164 (repetitive extragenic palindromic) element; contains 5 REP sequences | REP164 (repetitive extragenic palindromic) element; contains 5 REP sequences |
| ? | CP009273 | 2340838 = | 27 (0.700) | noncoding (200/203 nt) | REP164 (repetitive extragenic palindromic) element; contains 5 REP sequences | REP164 (repetitive extragenic palindromic) element; contains 5 REP sequences | |||||
| * | ? | CP009273 | 2358074 = | 29 (0.720) | 4 (0.100) | 3/298 | NT | 14.6% | coding (42/426 nt) | nudI | nucleoside triphosphatase |
| ? | CP009273 | 2358268 = | 19 (0.490) | coding (236/426 nt) | nudI | nucleoside triphosphatase | |||||
| * | ? | CP009273 | 2358776 = | 38 (0.950) | 4 (0.110) | 3/294 | NT | 10.3% | coding (324/603 nt) | ais | putative LPS core heptose(II)‑phosphate phosphatase |
| ? | CP009273 | 2358869 = | 34 (0.890) | coding (231/603 nt) | ais | putative LPS core heptose(II)‑phosphate phosphatase | |||||
| * | ? | CP009273 | = 2491587 | 30 (0.750) | 5 (0.130) | 4/288 | NT | 14.1% | coding (188/1239 nt) | alaC | valine‑pyruvate aminotransferase 3 |
| ? | CP009273 | = 2491794 | 33 (0.890) | intergenic (‑20/‑356) | alaC/ypdA | valine‑pyruvate aminotransferase 3/sensor kinase regulating yhjX; pyruvate‑responsive YpdAB two‑component system | |||||
| * | ? | CP009273 | = 2550592 | 46 (1.150) | 5 (0.130) | 3/300 | NT | 10.7% | coding (65/888 nt) | eutC | ethanolamine ammonia‑lyase, small subunit (light chain) |
| ? | CP009273 | = 2550668 | 39 (1.000) | intergenic (‑12/+9) | eutC/eutB | ethanolamine ammonia‑lyase, small subunit (light chain)/ethanolamine ammonia‑lyase, large subunit, heavy chain | |||||
| * | ? | CP009273 | = 2575558 | 34 (0.850) | 3 (0.080) | 3/296 | NT | 7.8% | coding (579/1044 nt) | ypfG | DUF1176 family protein |
| ? | CP009273 | = 2575704 | 38 (0.990) | coding (433/1044 nt) | ypfG | DUF1176 family protein | |||||
| * | ? | CP009273 | 2581209 = | 42 (1.050) | 3 (0.080) | 3/298 | NT | 7.5% | coding (256/3114 nt) | acrD | aminoglycoside/multidrug efflux system |
| ? | CP009273 | 2581371 = | 34 (0.880) | coding (418/3114 nt) | acrD | aminoglycoside/multidrug efflux system | |||||
| * | ? | CP009273 | 2619439 = | 29 (0.720) | 5 (0.130) | 5/302 | NT | 15.3% | coding (966/1542 nt) | ppx | exopolyphosphatase |
| ? | CP009273 | 2619960 = | 27 (0.690) | coding (1487/1542 nt) | ppx | exopolyphosphatase | |||||
| * | ? | CP009273 | 2645183 = | 40 (1.000) | 4 (0.100) | 3/296 | NT | 10.4% | coding (464/4962 nt) | yfhM | bacterial alpha2‑macroglobulin colonization factor ECAM; anti‑host protease defense factor; periplasmic inner membrane‑anchored lipoprotein |
| ? | CP009273 | 2645291 = | 31 (0.810) | coding (356/4962 nt) | yfhM | bacterial alpha2‑macroglobulin colonization factor ECAM; anti‑host protease defense factor; periplasmic inner membrane‑anchored lipoprotein | |||||
| * | ? | CP009273 | = 2665812 | 40 (1.000) | 5 (0.130) | 4/292 | NT | 11.5% | coding (407/1203 nt) | hcaD | phenylpropionate dioxygenase, ferredoxin reductase subunit |
| ? | CP009273 | = 2665927 | 39 (1.030) | coding (522/1203 nt) | hcaD | phenylpropionate dioxygenase, ferredoxin reductase subunit | |||||
| * | ? | CP009273 | 2697456 = | 25 (0.620) | 8 (0.220) | 4/284 | NT | 20.5% | intergenic (‑34/+238) | rnc/lepB | RNase III/leader peptidase (signal peptidase I) |
| ? | CP009273 | 2697550 = | 39 (1.060) | intergenic (‑128/+144) | rnc/lepB | RNase III/leader peptidase (signal peptidase I) | |||||
| * | ? | CP009273 | = 2784916 | 76 (1.890) | 8 (0.210) | 7/288 | NT | 8.4% | coding (285/1449 nt) | gabD | succinate‑semialdehyde dehydrogenase I, NADP‑dependent |
| ? | CP009273 | = 2785027 | 104 (2.790) | coding (396/1449 nt) | gabD | succinate‑semialdehyde dehydrogenase I, NADP‑dependent | |||||
| * | ? | CP009273 | 2800833 = | 37 (0.920) | 4 (0.110) | 4/292 | NT | 10.0% | coding (343/993 nt) | proX | glycine betaine transporter subunit |
| ? | CP009273 | 2800969 = | 37 (0.980) | coding (479/993 nt) | proX | glycine betaine transporter subunit | |||||
| * | ? | CP009273 | = 2877132 | 54 (1.350) | 4 (0.110) | 3/294 | NT | 8.1% | coding (366/1509 nt) | casA | CRISP RNA (crRNA) containing Cascade antiviral complex protein |
| ? | CP009273 | = 2877239 | 39 (1.020) | coding (259/1509 nt) | casA | CRISP RNA (crRNA) containing Cascade antiviral complex protein | |||||
| * | ? | CP009273 | = 2946067 | 76 (1.890) | 4 (0.100) | 4/296 | NT | 5.4% | coding (3296/3543 nt) | recB | exonuclease V (RecBCD complex), beta subunit |
| ? | CP009273 | = 2946203 | 68 (1.770) | coding (3160/3543 nt) | recB | exonuclease V (RecBCD complex), beta subunit | |||||
| * | ? | CP009273 | 2963082 = | 35 (0.870) | 4 (0.110) | 3/292 | NT | 12.3% | coding (62/690 nt) | mutH | methyl‑directed mismatch repair protein |
| ? | CP009273 | 2963452 = | 24 (0.630) | coding (432/690 nt) | mutH | methyl‑directed mismatch repair protein | |||||
| * | ? | CP009273 | = 3060837 | 29 (0.720) | 6 (0.160) | 6/288 | NT | 13.6% | coding (603/741 nt) | yggE | oxidative stress defense protein |
| ? | CP009273 | = 3060907 | 49 (1.310) | coding (533/741 nt) | yggE | oxidative stress defense protein | |||||
| * | ? | CP009273 | = 3128772 | 51 (1.270) | 8 (0.210) | 5/292 | NT | 15.1% | coding (959/1500 nt) | pitB | phosphate transporter |
| ? | CP009273 | = 3128845 | 42 (1.110) | coding (886/1500 nt) | pitB | phosphate transporter | |||||
| * | ? | CP009273 | 3141613 = | 36 (0.900) | 4 (0.110) | 4/294 | NT | 9.7% | coding (358/1041 nt) | gpr | L‑glyceraldehyde 3‑phosphate reductase |
| ? | CP009273 | 3141796 = | 40 (1.050) | coding (541/1041 nt) | gpr | L‑glyceraldehyde 3‑phosphate reductase | |||||
| * | ? | CP009273 | = 3145831 | 25 (0.620) | 4 (0.110) | 4/294 | NT | 13.6% | coding (237/1188 nt) | metC | cystathionine beta‑lyase, PLP‑dependent |
| ? | CP009273 | = 3146357 | 27 (0.710) | coding (763/1188 nt) | metC | cystathionine beta‑lyase, PLP‑dependent | |||||
| * | ? | CP009273 | 3209876 = | 42 (1.050) | 5 (0.140) | 4/286 | NT | 11.8% | intergenic (‑26/‑262) | yqjH/yqjI | putative siderophore interacting protein/PadR family putative transcriptional regulator |
| ? | CP009273 | 3210116 = | 36 (0.970) | intergenic (‑266/‑22) | yqjH/yqjI | putative siderophore interacting protein/PadR family putative transcriptional regulator | |||||
| * | ? | CP009273 | = 3210755 | 57 (1.420) | 3 (0.080) | 3/302 | NT | 5.1% | coding (618/624 nt) | yqjI | PadR family putative transcriptional regulator |
| ? | CP009273 | = 3210920 | NA (NA) | coding (1516/1521 nt) | aer | fused signal transducer for aerotaxis sensory component/methyl accepting chemotaxis component | |||||
| * | ? | CP009273 | = 3275658 | 39 (0.970) | 3 (0.080) | 3/290 | NT | 7.2% | coding (324/1155 nt) | agaS | tagatose‑6‑phosphate ketose/aldose isomerase |
| ? | CP009273 | = 3275906 | 41 (1.090) | coding (572/1155 nt) | agaS | tagatose‑6‑phosphate ketose/aldose isomerase | |||||
| * | ? | CP009273 | = 3275840 | 48 (1.200) | 4 (0.100) | 3/298 | NT | 8.0% | coding (506/1155 nt) | agaS | tagatose‑6‑phosphate ketose/aldose isomerase |
| ? | CP009273 | = 3275924 | 46 (1.190) | coding (590/1155 nt) | agaS | tagatose‑6‑phosphate ketose/aldose isomerase | |||||
| * | ? | CP009273 | 3347507 = | 43 (1.070) | 4 (0.110) | 4/292 | NT | 9.7% | intergenic (‑98/‑577) | yhcC/gltB | putative Fe‑S oxidoreductase, Radical SAM superfamily protein/glutamate synthase, large subunit |
| ? | CP009273 | 3347919 = | 34 (0.900) | intergenic (‑510/‑165) | yhcC/gltB | putative Fe‑S oxidoreductase, Radical SAM superfamily protein/glutamate synthase, large subunit | |||||
| * | ? | CP009273 | = 3409562 | 23 (0.570) | 4 (0.110) | 3/294 | NT | 13.6% | coding (1171/3105 nt) | acrF | multidrug efflux system protein |
| ? | CP009273 | = 3409649 | 29 (0.760) | coding (1258/3105 nt) | acrF | multidrug efflux system protein | |||||
| * | ? | CP009273 | = 3515028 | 25 (0.620) | 8 (0.210) | 4/292 | NT | 22.4% | coding (304/540 nt) | hofN | DNA catabolic putative fimbrial assembly protein |
| ? | CP009273 | = 3515380 | 32 (0.850) | coding (731/780 nt) | hofM | DNA catabolic putative pilus assembly protein | |||||
| * | ? | CP009273 | 3516478 = | 24 (0.600) | 3 (0.080) | 3/294 | NT | 8.6% | coding (249/2553 nt) | mrcA | fused penicillin‑binding protein 1a: murein transglycosylase/murein transpeptidase |
| ? | CP009273 | 3516913 = | 41 (1.080) | coding (684/2553 nt) | mrcA | fused penicillin‑binding protein 1a: murein transglycosylase/murein transpeptidase | |||||
| * | ? | CP009273 | 3572738 = | 45 (1.120) | 3 (0.080) | 3/290 | NT | 6.7% | coding (268/696 nt) | yhhW | quercetinase activity in vitro |
| ? | CP009273 | 3572841 = | 41 (1.090) | coding (165/696 nt) | yhhW | quercetinase activity in vitro | |||||
| * | ? | CP009273 | = 3581810 | 76 (1.890) | 4 (0.110) | 3/292 | NT | 5.7% | coding (731/1071 nt) | ugpC | glycerol‑3‑phosphate transporter subunit |
| ? | CP009273 | = 3582559 | 60 (1.590) | coding (829/846 nt) | ugpE | glycerol‑3‑phosphate transporter subunit | |||||
| * | ? | CP009273 | 3614229 = | 8 (0.200) | 6 (0.160) | 5/288 | NT | 14.2% | coding (1678/4236 nt) | rhsB | Rhs family putative polymorphic toxin, putative neighboring cell growth inhibitor |
| ? | CP009273 | 3757360 = | 65 (1.740) | coding (1818/4134 nt) | rhsA | Rhs family protein, putative polymorphic toxin; putative polysaccharide synthesis/export protein; putative neighboring cell growth inhibitor | |||||
| * | ? | CP009273 | 3635042 = | 59 (1.470) | 6 (0.160) | 6/298 | NT | 10.1% | coding (821/1470 nt) | dtpB | dipeptide and tripeptide permease B |
| ? | CP009273 | 3635127 = | 50 (1.300) | coding (906/1470 nt) | dtpB | dipeptide and tripeptide permease B | |||||
| * | ? | CP009273 | 3734346 = | NA (NA) | 6 (0.160) | 3/294 | NT | 18.2% | noncoding (23/98 nt) | RIP269 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP269 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | CP009273 | 3734395 = | 27 (0.710) | noncoding (72/98 nt) | RIP269 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP269 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | CP009273 | = 3767625 | 26 (0.650) | 6 (0.160) | 4/294 | NT | 19.6% | noncoding (30/99 nt) | RIP271 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP271 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | CP009273 | = 3767659 | NA (NA) | noncoding (64/99 nt) | RIP271 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP271 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | CP009273 | = 3791685 | 25 (0.620) | 4 (0.100) | 3/304 | NT | 6.4% | coding (988/1074 nt) | waaU | lipopolysaccharide core biosynthesis |
| ? | CP009273 | = 3791876 | 93 (2.360) | coding (797/1074 nt) | waaU | lipopolysaccharide core biosynthesis | |||||
| * | ? | CP009273 | = 3849876 | 63 (1.570) | 4 (0.100) | 3/296 | NT | 6.6% | coding (102/450 nt) | yidI | inner membrane protein |
| ? | CP009273 | = 3849974 | 53 (1.380) | coding (200/450 nt) | yidI | inner membrane protein | |||||
| * | ? | CP009273 | = 3921394 | 42 (1.050) | 6 (0.160) | 5/296 | NT | 18.2% | coding (880/993 nt) | asnA | asparagine synthetase A |
| ? | CP009273 | = 3921515 | 14 (0.370) | coding (1449/1452 nt) | viaA | stimulator of RavA ATPase activity; von Willebrand factor domain protein | |||||
| * | ? | CP009273 | 3949028 = | 34 (0.850) | 5 (0.130) | 5/294 | NT | 10.4% | coding (338/1545 nt) | ilvA | L‑threonine dehydratase, biosynthetic; also known as threonine deaminase |
| ? | CP009273 | 3949257 = | 54 (1.420) | coding (567/1545 nt) | ilvA | L‑threonine dehydratase, biosynthetic; also known as threonine deaminase | |||||
| * | ? | CP009273 | 3959091 = | 55 (1.370) | 3 (0.080) | 3/298 | NT | 7.6% | intergenic (‑101/‑30) | rhlB/trxA | ATP‑dependent RNA helicase/thioredoxin 1 |
| ? | CP009273 | 3959502 = | 20 (0.520) | intergenic (+52/‑275) | trxA/rho | thioredoxin 1/transcription termination factor | |||||
| * | ? | CP009273 | = 4125531 | 43 (1.070) | 5 (0.130) | 5/296 | NT | 10.6% | coding (1769/2181 nt) | katG | catalase‑peroxidase HPI, heme b‑containing |
| ? | CP009273 | = 4125717 | 43 (1.120) | coding (1955/2181 nt) | katG | catalase‑peroxidase HPI, heme b‑containing | |||||
| * | ? | CP009273 | 4221838 = | 66 (1.640) | 4 (0.100) | 3/296 | NT | 7.3% | coding (1324/1350 nt) | lysC | lysine‑sensitive aspartokinase 3 |
| ? | CP009273 | 4222227 = | 38 (0.990) | coding (935/1350 nt) | lysC | lysine‑sensitive aspartokinase 3 | |||||
| * | ? | CP009273 | 4238808 = | 47 (1.170) | 4 (0.100) | 3/300 | NT | 9.4% | coding (910/1341 nt) | lamB | maltose outer membrane porin (maltoporin) |
| ? | CP009273 | 4238948 = | 32 (0.820) | coding (1050/1341 nt) | lamB | maltose outer membrane porin (maltoporin) | |||||
| * | ? | CP009273 | = 4307297 | 53 (1.320) | 4 (0.110) | 4/292 | NT | 7.7% | coding (416/681 nt) | phnL | ribophosphonate triphosphate synthase subunit; putative ABC transporter ATP‑binding protein |
| ? | CP009273 | = 4307349 | 46 (1.220) | coding (364/681 nt) | phnL | ribophosphonate triphosphate synthase subunit; putative ABC transporter ATP‑binding protein | |||||
| * | ? | CP009273 | = 4322057 | 47 (1.170) | 4 (0.110) | 3/288 | NT | 8.7% | coding (1033/1092 nt) | basS | sensory histidine kinase in two‑component regulatory system with BasR |
| ? | CP009273 | = 4322489 | 40 (1.070) | coding (601/1092 nt) | basS | sensory histidine kinase in two‑component regulatory system with BasR | |||||
| * | ? | CP009273 | 4326002 = | 21 (0.520) | 4 (0.100) | 3/298 | NT | 14.5% | coding (847/1338 nt) | adiC | arginine:agmatine antiporter |
| ? | CP009273 | 4326087 = | 27 (0.700) | coding (762/1338 nt) | adiC | arginine:agmatine antiporter | |||||
| * | ? | CP009273 | 4551430 = | 53 (1.320) | 4 (0.100) | 3/304 | NT | 8.1% | coding (1063/1179 nt) | yjiJ | DUF1228 family putative inner membrane MFS superfamily transporter |
| ? | CP009273 | 4551990 = | 39 (0.990) | coding (503/1179 nt) | yjiJ | DUF1228 family putative inner membrane MFS superfamily transporter | |||||
| * | ? | CP009273 | = 4626358 | 61 (1.520) | 5 (0.130) | 4/288 | NT | 8.8% | coding (535/690 nt) | creB | response regulator in two‑component regulatory system with CreC |
| ? | CP009273 | = 4626652 | 47 (1.260) | coding (140/1425 nt) | creC | sensory histidine kinase in two‑component regulatory system with CreB or PhoB, regulator of the CreBC regulon | |||||