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 | 31,865 | C→A | 7.7% | P350Q (CCG→CAG) | carB → | carbamoyl‑phosphate synthase large subunit |
| RA | 92,694 | G→A | 6.7% | R69H (CGC→CAC) | mraY → | phospho‑N‑acetylmuramoyl‑pentapeptide transferase |
| RA | 106,561 | C→A | 5.6% | A599D (GCT→GAT) | secA → | preprotein translocase subunit, ATPase |
| RA | 142,984 | C→A | 9.7% | S66S (TCG→TCT) | panD ← | aspartate 1‑decarboxylase |
| RA | 222,173 | T→C | 6.3% | intergenic (+111/‑73) | alaV → / → rrlH | tRNA‑Ala/23S ribosomal RNA of rrnH operon |
| RA | 232,438 | C→T | 10.9% | G18R (GGA→AGA) | rnhA ← | ribonuclease HI, degrades RNA of DNA‑RNA hybrids |
| RA | 252,298 | T→C | 6.6% | intergenic (‑95/‑166) | pepD ← / → gpt | aminoacyl‑histidine dipeptidase (peptidase D)/xanthine phosphoribosyltransferase; xanthine‑guanine phosphoribosyltransferase |
| RA | 432,277 | C→A | 5.8% | T78K (ACG→AAG) | pgpA → | phosphatidylglycerophosphatase A |
| RA | 514,386 | C→T | 6.7% | D74N (GAT→AAT) | ybbO ← | putative oxidoreductase |
| RA | 577,294 | G→T | 5.1% | pseudogene (179/438 nt) | tfaD → | pseudogene, DLP12 prophage; tail fiber assembly protein family;Phage or Prophage Related |
| RA | 578,442 | T→C | 5.6% | pseudogene (34/183 nt) | tfaX → | pseudogene, DLP12 prophage;Phage or Prophage Related |
| RA | 578,456 | G→T | 5.1% | pseudogene (48/183 nt) | tfaX → | pseudogene, DLP12 prophage;Phage or Prophage Related |
| RA | 605,629 | A→C | 5.7% | intergenic (‑94/+81) | entD ← / ← fepA | phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex/iron‑enterobactin outer membrane transporter |
| RA | 697,459 | A→G | 5.6% | L250P (CTG→CCG) | nagA ← | N‑acetylglucosamine‑6‑phosphate deacetylase |
| RA | 733,384 | C→G | 6.2% | pseudogene (1104/1137 nt) | ybfL → | pseudogene, DDE domain transposase family;putative factor; Not classified; putative receptor protein |
| RA | 776,297:1 | +T | 7.5% | intergenic (+1/‑2) | valT → / → lysW | tRNA‑Val/tRNA‑Lys |
| RA | 842,121 | C→G | 6.7% | G152A (GGT→GCT) | glnP ← | glutamine transporter subunit |
| RA | 842,550 | C→A | 8.5% | W9L (TGG→TTG) | glnP ← | glutamine transporter subunit |
| RA | 910,682 | T→G | 11.3% | intergenic (‑369/+126) | ybjE ← / ← aqpZ | putative transporter/aquaporin Z |
| RA | 957,041 | G→A | 7.7% | D129N (GAT→AAT) | cmk → | cytidylate kinase |
| RA | 1,005,814 | T→C | 5.7% | L132P (CTG→CCG) | uup → | putative transporter subunit of ABC superfamily: ATP‑binding component |
| RA | 1,045,283 | T→G | 7.7% | intergenic (‑83/‑6) | gfcA ← / → insA | O‑antigen capsule production threonine‑rich inner membrane protein/IS1 repressor TnpA |
| RA | 1,105,655 | C→T | 6.0% | R289C (CGT→TGT) | opgG → | osmoregulated periplasmic glucan (OPG) biosynthesis periplasmic protein |
| RA | 1,172,651 | C→A | 6.0% | R193S (CGC→AGC) | lolD → | outer membrane‑specific lipoprotein transporter subunit |
| RA | 1,203,094 | A→G | 6.4% | E46E (GAA→GAG) | stfP → | e14 prophage; uncharacterized protein |
| RA | 1,203,106 | G→T | 7.2% | V50V (GTG→GTT) | stfP → | e14 prophage; uncharacterized protein |
| RA | 1,204,059 | C→T | 10.8% | A173T (GCT→ACT) | tfaE ← | e14 prophage; putative tail fiber assembly protein |
| RA | 1,204,068 | T→G | 6.1% | R170R (AGA→CGA) | tfaE ← | e14 prophage; putative tail fiber assembly protein |
| RA | 1,204,071 | T→A | 5.7% | T169S (ACC→TCC) | tfaE ← | e14 prophage; putative tail fiber assembly protein |
| RA | 1,204,072 | T→G | 5.7% | T168T (ACA→ACC) | tfaE ← | e14 prophage; putative tail fiber assembly protein |
| RA | 1,204,075 | T→C | 5.7% | E167E (GAA→GAG) | tfaE ← | e14 prophage; putative tail fiber assembly protein |
| RA | 1,210,188 | C→T | 11.8% | L248L (CTG→CTA) | bluF ← | anti‑repressor for YcgE, blue light‑responsive; FAD‑binding; has c‑di‑GMP phosphodiesterase‑like EAL domain, but does not degrade c‑di‑GMP |
| RA | 1,249,813 | C→A | 6.8% | M532I (ATG→ATT) | ycgV ← | putative adhesin |
| RA | 1,265,353 | T→G | 8.5% | noncoding (40/66 nt) | rdlB → | sRNA antisense regulator affects LdrB translation; proposed addiction module in LDR‑B repeat, with toxic peptide LdrB |
| RA | 1,282,249 | A→G | 7.3% | intergenic (+267/+273) | narI → / ← rttR | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/rtT sRNA, processed from tyrT transcript |
| RA | 1,282,421 | A→G | 5.8% | intergenic (+439/+101) | narI → / ← rttR | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/rtT sRNA, processed from tyrT transcript |
| RA | 1,282,439 | A→G | 7.0% | intergenic (+457/+83) | narI → / ← rttR | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/rtT sRNA, processed from tyrT transcript |
| RA | 1,317,201 | C→G | 6.4% | M1M (ATG→ATC) † | trpE ← | component I of anthranilate synthase |
| RA | 1,342,845 | C→T | 14.3% | A109T (GCC→ACC) | rnb ← | ribonuclease II |
| RA | 1,450,024 | G→T | 8.2% | G202W (GGG→TGG) | paaC → | ring 1,2‑phenylacetyl‑CoA epoxidase subunit |
| RA | 1,460,819 | G→A | 9.1% | pseudogene (1171/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,527,113 | T→G | 11.7% | D347E (GAT→GAG) | ydcC → | H repeat‑associated putative transposase |
| RA | 1,538,284 | G→C | 7.3% | L12V (CTT→GTT) | narU ← | nitrate/nitrite transporter |
| RA | 1,573,956 | Δ1 bp | 18.2% | coding (1092/1158 nt) | ydeM ← | putative YdeN‑specific sulfatase‑maturating enzyme |
| RA | 1,573,957 | Δ1 bp | 18.2% | coding (1091/1158 nt) | ydeM ← | putative YdeN‑specific sulfatase‑maturating enzyme |
| RA | 1,585,083 | C→A | 10.9% | intergenic (‑290/+28) | yneL ← / ← hipA | pseudogene, AraC family/inactivating GltX kinase facilitating persister formation; toxin of HipAB TA pair; autokinase |
| RA | 1,599,695 | C→A | 10.0% | Q130K (CAG→AAG) | lsrB → | autoinducer 2‑binding protein |
| RA | 1,618,262 | C→A | 16.7% | intergenic (‑155/+100) | dgcZ ← / ← ydeI | diguanylate cyclase, zinc‑sensing/hydrogen peroxide resistance OB fold protein; putative periplasmic protein |
| RA | 1,656,564 | C→A | 13.9% | I584I (ATC→ATA) | ynfF → | S‑ and N‑oxide reductase, A subunit, periplasmic |
| RA | 1,708,373 | C→T | 5.7% | P450S (CCG→TCG) | dtpA → | dipeptide and tripeptide permease A |
| RA | 1,710,665 | A→G | 5.5% | L272P (CTG→CCG) | tyrS ← | tyrosyl‑tRNA synthetase |
| RA | 1,770,065 | C→T | 8.9% | R74R (CGC→CGT) | ydiF → | putative acetyl‑CoA:acetoacetyl‑CoA transferase: alpha subunit/beta subunit |
| RA | 1,775,329 | C→T | 6.0% | V224V (GTC→GTT) | ydiR → | putative electron transfer flavoprotein, FAD‑binding subunit |
| RA | 1,780,803 | G→A | 7.2% | S189S (TCC→TCT) | ppsA ← | phosphoenolpyruvate synthase |
| RA | 1,817,011 | C→A | 6.0% | A99A (GCC→GCA) | nadE → | NAD synthetase, NH3/glutamine‑dependent |
| RA | 1,843,259 | C→A | 9.0% | R56S (CGT→AGT) | sppA → | protease IV (signal peptide peptidase) |
| RA | 1,868,596 | C→T | 8.7% | intergenic (‑157/‑13) | yoaI ← / → yeaL | uncharacterized protein/UPF0756 family putative inner membrane protein |
| RA | 1,905,334 | C→T | 6.4% | P268S (CCG→TCG) | yebQ → | putative transporter |
| RA | 1,916,910 | G→A | 5.8% | A106V (GCG→GTG) | pphA ← | serine/threonine‑specific protein phosphatase 1 |
| RA | 1,931,183 | A→T | 8.7% | E92V (GAA→GTA) | yebK → | putative DNA‑binding transcriptional regulator |
| RA | 1,941,650 | G→T | 5.2% | intergenic (‑17/+18) | ruvC ← / ← yebC | component of RuvABC resolvasome, endonuclease/UPF0082 family protein |
| JC JC | 1,972,769 | IS1 (–) +9 bp | 88.4% | intergenic (‑315/‑457) | flhD ← / → uspC | flagellar class II regulon transcriptional activator, with FlhC/universal stress protein |
| RA | 1,976,179 | C→A | 16.0% | A281A (GCG→GCT) | araH ← | fused L‑arabinose transporter subunits of ABC superfamily: membrane components |
| RA | 2,059,656 | T→C | 7.9% | intergenic (‑21/+130) | yeeH ← / ← insH1 | pseudogene/IS5 transposase and trans‑activator |
| RA | 2,074,755 | Δ1 bp | 7.3% | intergenic (‑12/+107) | sbmC ← / ← dacD | DNA gyrase inhibitor/D‑alanyl‑D‑alanine carboxypeptidase (penicillin‑binding protein 6b) |
| RA | 2,074,756 | Δ1 bp | 7.3% | intergenic (‑13/+106) | sbmC ← / ← dacD | DNA gyrase inhibitor/D‑alanyl‑D‑alanine carboxypeptidase (penicillin‑binding protein 6b) |
| RA | 2,074,757 | Δ1 bp | 7.3% | intergenic (‑14/+105) | sbmC ← / ← dacD | DNA gyrase inhibitor/D‑alanyl‑D‑alanine carboxypeptidase (penicillin‑binding protein 6b) |
| RA | 2,074,758 | Δ1 bp | 7.4% | intergenic (‑15/+104) | sbmC ← / ← dacD | DNA gyrase inhibitor/D‑alanyl‑D‑alanine carboxypeptidase (penicillin‑binding protein 6b) |
| RA | 2,074,759 | Δ1 bp | 7.4% | intergenic (‑16/+103) | sbmC ← / ← dacD | DNA gyrase inhibitor/D‑alanyl‑D‑alanine carboxypeptidase (penicillin‑binding protein 6b) |
| RA | 2,074,760 | Δ1 bp | 7.7% | intergenic (‑17/+102) | sbmC ← / ← dacD | DNA gyrase inhibitor/D‑alanyl‑D‑alanine carboxypeptidase (penicillin‑binding protein 6b) |
| RA | 2,075,661 | C→A | 9.0% | R123L (CGT→CTT) | dacD ← | D‑alanyl‑D‑alanine carboxypeptidase (penicillin‑binding protein 6b) |
| RA | 2,120,516 | G→A | 6.6% | A52A (GCC→GCT) | wcaG ← | bifunctional GDP‑fucose synthetase: GDP‑4‑dehydro‑6‑deoxy‑D‑mannose epimerase/ GDP‑4‑dehydro‑6‑L‑deoxygalactose reductase |
| RA | 2,141,098 | C→A | 6.4% | intergenic (‑77/‑57) | alkA ← / → yegD | 3‑methyl‑adenine DNA glycosylase II/Hsp70 chaperone family protein |
| RA | 2,147,768 | G→A | 5.2% | R91H (CGC→CAC) | mdtA → | multidrug efflux system, subunit A |
| RA | 2,172,126 | G→A | 10.0% | intergenic (‑83/‑174) | fbaB ← / → yegT | fructose‑bisphosphate aldolase class I/nucleoside transporter, low affinity |
| RA | 2,189,728 | G→A | 9.1% | M650I (ATG→ATA) | metG → | methionyl‑tRNA synthetase |
| RA | 2,207,492 | G→A | 5.8% | T211I (ACT→ATT) | yehU ← | inner membrane putative sensory kinase in two‑component system with YehT |
| RA | 2,252,463 | C→A | 7.0% | G105C (GGT→TGT) | psuK ← | pseudouridine kinase |
| RA | 2,339,242 | G→T | 5.1% | G300V (GGT→GTT) | nrdA → | ribonucleoside‑diphosphate reductase 1, alpha subunit |
| RA | 2,376,314 | C→A | 6.4% | S41S (TCC→TCA) | elaD → | protease, capable of cleaving an AMC‑ubiquitin model substrate |
| RA | 2,467,407 | G→T | 12.9% | G109C (GGT→TGT) | yfdP → | CPS‑53 (KpLE1) prophage; uncharacterized protein |
| RA | 2,481,801 | G→A | 6.8% | R283C (CGC→TGC) | yfdE ← | acetyl‑CoA:oxalate CoA‑transferase |
| RA | 2,493,903 | G→A | 9.5% | Q14Q (CAG→CAA) | ypdB → | response regulator activating yhjX; pyruvate‑responsive YpdAB two‑component system |
| RA | 2,494,451 | G→A | 10.2% | R197H (CGC→CAC) | ypdB → | response regulator activating yhjX; pyruvate‑responsive YpdAB two‑component system |
| RA | 2,530,699 | C→A | 6.6% | intergenic (‑103/‑2) | pdxK ← / → yfeK | pyridoxal‑pyridoxamine kinase/hydroxymethylpyrimidine kinase/uncharacterized protein |
| RA | 2,631,602 | C→A | 5.3% | S137I (AGC→ATC) | bamB ← | BamABCDE complex OM biogenesis lipoprotein |
| RA | 2,682,911 | A→T | 6.7% | intergenic (‑46/+119) | yfhG ← / ← glrK | putative outer membrane protein modulating the QseEF response/sensor protein kinase regulating glmY sRNA in two‑component system with response regulator GlrR |
| RA | 2,682,952 | T→C | 6.9% | intergenic (‑87/+78) | yfhG ← / ← glrK | putative outer membrane protein modulating the QseEF response/sensor protein kinase regulating glmY sRNA in two‑component system with response regulator GlrR |
| RA | 2,682,954 | Δ1 bp | 5.9% | intergenic (‑89/+76) | yfhG ← / ← glrK | putative outer membrane protein modulating the QseEF response/sensor protein kinase regulating glmY sRNA in two‑component system with response regulator GlrR |
| RA | 2,682,955 | C→A | 7.1% | intergenic (‑90/+75) | yfhG ← / ← glrK | putative outer membrane protein modulating the QseEF response/sensor protein kinase regulating glmY sRNA in two‑component system with response regulator GlrR |
| RA | 2,682,964 | A→G | 6.2% | intergenic (‑99/+66) | yfhG ← / ← glrK | putative outer membrane protein modulating the QseEF response/sensor protein kinase regulating glmY sRNA in two‑component system with response regulator GlrR |
| RA | 2,719,426 | T→C | 89.7% | intergenic (‑321/+2) | kgtP ← / ← rrfG | alpha‑ketoglutarate transporter/5S ribosomal RNA of rrnG operon |
| RA | 2,733,018 | A→G | 5.1% | A137A (GCT→GCC) | tyrA ← | fused chorismate mutase T/prephenate dehydrogenase |
| RA | 2,776,157 | A→G | 5.5% | intergenic (‑72/+267) | ypjA ← / ← pinH | adhesin‑like autotransporter/pseudogene, invertase resolvase family |
| RA | 2,811,408 | T→A | 5.0% | intergenic (‑189/+10) | argQ ← / ← argZ | tRNA‑Arg/tRNA‑Arg |
| RA | 2,811,690 | G→T | 7.5% | intergenic (‑57/+142) | argY ← / ← argV | tRNA‑Arg/tRNA‑Arg |
| RA | 2,813,034 | G→A | 7.7% | S779S (AGC→AGT) | alaS ← | alanyl‑tRNA synthetase |
| RA | 2,818,694 | A→G | 7.7% | I81T (ATT→ACT) | mltB ← | membrane‑bound lytic murein transglycosylase B |
| RA | 2,893,417 | C→A | 5.3% | Q72H (CAG→CAT) | ygcW ← | putative dehydrogenase |
| RA | 2,908,438:1 | +C | 5.8% | coding (23/2757 nt) | barA → | hybrid sensory histidine kinase, in two‑component regulatory system with UvrY |
| RA | 2,908,438:2 | +G | 5.8% | coding (23/2757 nt) | barA → | hybrid sensory histidine kinase, in two‑component regulatory system with UvrY |
| RA | 2,908,438:3 | +G | 5.8% | coding (23/2757 nt) | barA → | hybrid sensory histidine kinase, in two‑component regulatory system with UvrY |
| RA | 2,908,438:4 | +A | 5.8% | coding (23/2757 nt) | barA → | hybrid sensory histidine kinase, in two‑component regulatory system with UvrY |
| RA | 2,908,440 | C→A | 5.6% | R9S (CGC→AGC) | barA → | hybrid sensory histidine kinase, in two‑component regulatory system with UvrY |
| RA | 2,930,247 | G→A | 5.1% | P435P (CCG→CCA) | fucI → | L‑fucose isomerase |
| RA | 2,974,280 | C→A | 7.4% | S421I (AGC→ATC) | araE ← | arabinose transporter |
| RA | 3,050,687 | C→A | 6.4% | Q361H (CAG→CAT) | serA ← | D‑3‑phosphoglycerate dehydrogenase |
| RA | 3,075,172 | G→A | 6.3% | intergenic (‑178/‑100) | tktA ← / → loiP | transketolase 1, thiamine triphosphate‑binding/Phe‑Phe periplasmic metalloprotease, OM lipoprotein; low salt‑inducible; heat shock protein that binds Era |
| RA | 3,097,349 | G→A | 5.8% | A326A (GCG→GCA) | mutY → | adenine DNA glycosylase |
| RA | 3,194,822 | G→T | 6.2% | S86I (AGC→ATC) | ygiM → | SH3 domain protein |
| RA | 3,200,062 | G→A | 6.3% | V81I (GTT→ATT) | ttdA → | L‑tartrate dehydratase, alpha subunit |
| RA | 3,263,428 | C→T | 8.2% | intergenic (+467/+147) | yhaC → / ← rnpB | pentapetide repeats‑related protein/RNase P, M1 RNA component |
| RA | 3,385,560 | C→G | 7.3% | intergenic (‑173/+257) | tldD ← / ← yhdP | putative peptidase/DUF3971‑AsmA2 domains protein |
| RA | 3,416,890 | T→G | 14.7% | noncoding (12/120 nt) | rrfF ← | 5S ribosomal RNA of rrnD operon |
| RA | 3,416,899 | A→G | 17.4% | noncoding (3/120 nt) | rrfF ← | 5S ribosomal RNA of rrnD operon |
| RA | 3,432,905 | T→C | 9.4% | intergenic (‑37/+70) | yhdN ← / ← rplQ | DUF1992 family protein/50S ribosomal subunit protein L17 |
| RA | 3,464,590 | G→A | 6.3% | T33T (ACC→ACT) | tufA ← | translation elongation factor EF‑Tu 1 |
| RA | 3,478,343 | G→T | 5.0% | L165L (CTG→CTT) | prkB → | putative phosphoribulokinase |
| RA | 3,498,239 | A→C | 6.3% | intergenic (+97/+55) | frlR → / ← yhfS | putative DNA‑binding transcriptional regulator/FNR‑regulated pyridoxal phosphate‑dependent aminotransferase family protein |
| RA | 3,505,946 | A→G | 7.0% | intergenic (‑243/+47) | yhfZ ← / ← trpS | putative DNA‑binding transcriptional regulator/tryptophanyl‑tRNA synthetase |
| RA | 3,505,963 | Δ1 bp | 14.0% | intergenic (‑260/+30) | yhfZ ← / ← trpS | putative DNA‑binding transcriptional regulator/tryptophanyl‑tRNA synthetase |
| RA | 3,729,630 | T→C | 7.3% | intergenic (+113/+83) | xylR → / ← bax | xylose divergent operon transcriptional activator/putative glucosaminidase |
| RA | 3,877,923 | A→G | 100% | Q24R (CAG→CGG) | rnpA → | protein C5 component of RNase P |
| RA | 3,950,266 | A→G | 5.7% | intergenic (+31/+21) | ilvA → / ← ilvY | L‑threonine dehydratase, biosynthetic; also known as threonine deaminase/transcriptional activator of ilvC; autorepressor |
| RA | 3,977,500 | G→A | 10.7% | G395S (GGT→AGT) | aslB → | putative AslA‑specific sulfatase‑maturating enzyme |
| RA | 3,995,469 | G→A | 7.0% | P228P (CCG→CCA) | corA → | magnesium/nickel/cobalt transporter |
| RA | 4,007,885 | G→T | 5.1% | V491V (GTG→GTT) | metE → | 5‑methyltetrahydropteroyltriglutamate‑ homocysteine S‑methyltransferase |
| RA | 4,019,993 | Δ1 bp | 100% | coding (107/702 nt) | fre → | NAD(P)H‑flavin reductase |
| RA | 4,026,211:1 | +A | 6.6% | coding (360/615 nt) | yigZ → | UPF0029 family protein |
| RA | 4,026,211:2 | +A | 6.6% | coding (360/615 nt) | yigZ → | UPF0029 family protein |
| RA | 4,026,211:3 | +A | 6.6% | coding (360/615 nt) | yigZ → | UPF0029 family protein |
| RA | 4,026,212 | G→C | 6.4% | V121L (GTG→CTG) | yigZ → | UPF0029 family protein |
| RA | 4,026,213:1 | +G | 6.1% | coding (362/615 nt) | yigZ → | UPF0029 family protein |
| RA | 4,026,216:1 | +G | 6.1% | coding (365/615 nt) | yigZ → | UPF0029 family protein |
| RA | 4,026,216:2 | +G | 6.1% | coding (365/615 nt) | yigZ → | UPF0029 family protein |
| RA | 4,026,217 | T→C | 6.0% | N122N (AAT→AAC) | yigZ → | UPF0029 family protein |
| RA | 4,055,205 | T→C | 7.4% | G227G (GGT→GGC) | yihM → | putative sugar phosphate isomerase |
| RA | 4,085,661 | C→A | 6.1% | M22I (ATG→ATT) | frvB ← | putative PTS enzyme, IIB component/IIC component |
| RA | 4,095,803 | G→T | 8.3% | S19I (AGC→ATC) | cpxP → | inhibitor of the cpx response; periplasmic adaptor protein |
| RA | 4,134,684 | G→T | 8.4% | M254I (ATG→ATT) | pflD → | putative glycine radical domain‑containing pyruvate formate‑lyase |
| RA | 4,156,331 | A→G | 11.8% | intergenic (+118/‑256) | murI → / → rrsB | glutamate racemase/16S ribosomal RNA of rrnB operon |
| RA | 4,161,576 | A→C | 14.6% | noncoding (12/120 nt) | rrfB → | 5S ribosomal RNA of rrnB operon |
| RA | 4,163,333 | T→C | 5.1% | I108I (ATT→ATC) | birA → | bifunctional biotin‑[acetylCoA carboxylase] holoenzyme synthetase/ DNA‑binding transcriptional repressor, bio‑5'‑AMP‑binding |
| RA | 4,165,449 | C→T | 14.8% | noncoding (50/85 nt) | tyrU → | tRNA‑Tyr |
| RA | 4,165,450 | A→C | 14.4% | noncoding (51/85 nt) | tyrU → | tRNA‑Tyr |
| RA | 4,172,857 | A→T | 26.2% | E562V (GAA→GTA) | rpoB → | RNA polymerase, beta subunit |
| RA | 4,178,500 | C→T | 9.8% | R1075C (CGT→TGT) ‡ | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,178,501 | G→C | 31.4% | R1075P (CGT→CCT) ‡ | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,210,863 | A→G | 6.8% | L518P (CTC→CCC) | arpA ← | ankyrin repeat protein |
| RA | 4,236,539 | G→A | 6.6% | intergenic (‑192/‑173) | malE ← / → malK | maltose transporter subunit/fused maltose transport subunit, ATP‑binding component of ABC superfamily/regulatory protein |
| RA | 4,245,193 | G→T | 5.1% | T401K (ACG→AAG) | plsB ← | glycerol‑3‑phosphate O‑acyltransferase |
| RA | 4,299,574:1 | +G | 6.1% | coding (1224/1533 nt) | alsA ← | fused D‑allose transporter subunits of ABC superfamily: ATP‑binding components |
| RA | 4,299,574:2 | +T | 6.1% | coding (1224/1533 nt) | alsA ← | fused D‑allose transporter subunits of ABC superfamily: ATP‑binding components |
| RA | 4,336,205 | G→A | 6.3% | G313G (GGC→GGT) | fumB ← | anaerobic class I fumarate hydratase (fumarase B) |
| RA | 4,336,238 | A→G | 12.5% | R302R (CGT→CGC) | fumB ← | anaerobic class I fumarate hydratase (fumarase B) |
| RA | 4,336,241 | G→A | 11.8% | I301I (ATC→ATT) | fumB ← | anaerobic class I fumarate hydratase (fumarase B) |
| RA | 4,438,737 | G→T | 5.3% | V77L (GTG→TTG) | chpB → | toxin of the ChpB‑ChpS toxin‑antitoxin system |
| RA | 4,508,830 | A→G | 5.2% | pseudogene (293/504 nt) | insB1 → | IS1 transposase B;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 4,602,419 | G→A | 5.7% | A64A (GCG→GCA) | yjjU → | putative patatin‑like family phospholipase |
| RA | 4,608,905 | G→T | 5.5% | G287V (GGC→GTC) | deoA → | thymidine phosphorylase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | CP009273 | 463841 | 464205 | 365 | 9 [6] | [5] 7 | ybaO | putative DNA‑binding transcriptional regulator |
| * | * | ÷ | CP009273 | 2027281 | 2027444 | 164 | 8 [5] | [4] 7 | rseX/yedS | sRNA antisense regulator of ompA and ompC translation, Hfq‑dependent/pseudogene, outer membrane protein homology; putative outer membrane protein |
| * | * | ÷ | CP009273 | 3745314 | 3745341 | 28 | 7 [0] | [4] 7 | yiaT/yiaU | putative outer membrane protein/putative DNA‑binding transcriptional regulator |
| * | * | ÷ | CP009273 | 3792691 | 3792867 | 177 | 8 [6] | [6] 7 | [waaZ] | [waaZ] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 360104 = | 119 (1.260) | 125 (1.320) | 44/250 | NT | 51.2% | intergenic (‑38/+557) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor |
| ? | CP009273 | = 360286 | NA (NA) | intergenic (‑220/+375) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor | |||||
| * | ? | CP009273 | 370378 = | NA (NA) | 15 (0.170) | 5/234 | NT | NA | intergenic (+41/‑537) | mhpE/mhpT | 4‑hyroxy‑2‑oxovalerate/4‑hydroxy‑2‑oxopentanoic acid aldolase, class I/3‑hydroxyphenylpropionic transporter |
| ? | CP009273 | 372785 = | NA (NA) | intergenic (+18/+206) | yaiL/frmB | DUF2058 family protein/S‑formylglutathione hydrolase | |||||
| * | ? | CP009273 | = 370385 | 97 (1.410) | 18 (0.290) | 5/164 | NT | 17.1% | intergenic (+48/‑530) | mhpE/mhpT | 4‑hyroxy‑2‑oxovalerate/4‑hydroxy‑2‑oxopentanoic acid aldolase, class I/3‑hydroxyphenylpropionic transporter |
| ? | CP009273 | = 372977 | NA (NA) | noncoding (187/187 nt) | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | |||||
| * | ? | CP009273 | = 370414 | 123 (1.300) | 9 (0.140) | 4/176 | NT | 11.7% | noncoding (29/436 nt) | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | CP009273 | = 372848 | 49 (0.740) | noncoding (58/187 nt) | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | |||||
| * | ? | CP009273 | 776010 = | 56 (0.590) | 26 (0.280) +G |
4/248 | NT | 30.8% | noncoding (1/76 nt) | lysT | tRNA‑Lys |
| ? | CP009273 | = 2514488 | 62 (0.650) | noncoding (216/1345 nt) | IS186 | repeat region | |||||
| * | ? | CP009273 | 1203246 = | 58 (0.610) | 17 (0.210) | 11/218 | NT | 35.2% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | 1205075 = | 12 (0.150) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | = 1203261 | 53 (0.560) | 22 (0.270) | 16/218 | NT | 43.1% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | = 1205058 | 12 (0.150) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | = 1972777 | 4 (0.040) | 63 (0.670) | 31/250 | NT | 94.0% | intergenic (‑323/‑457) | flhD/uspC | flagellar class II regulon transcriptional activator, with FlhC/universal stress protein |
| ? | CP009273 | = 3577555 | NA (NA) | intergenic (+15/‑1) | insB1/yrhA | IS1 transposase B/pseudogene, interrupted by IS1E | |||||