mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| JC JC | 57,276 | IS2 (+) +5 bp | intergenic (‑167/‑84) | lptD ← / → djlA | lipopolysaccharide assembly protein LptD/co‑chaperone protein DjlA |
| RA | 71,134 | G→A | G250S (GGT→AGT) | araC → | DNA‑binding transcriptional dual regulator AraC |
| RA | 197,510 | G→A | G322E (GGG→GAG) | rseP → | intramembrane zinc metalloprotease RseP |
| RA | 251,499 | G→A | G201D (GGT→GAT) | dinB → | DNA polymerase IV |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 468,825 | C→T | S148F (TCT→TTT) | decR → | DNA‑binding transcriptional activator DecR |
| RA | 557,635 | A→T | L36Q (CTG→CAG) | folD ← | bifunctional methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase |
| JC JC | 568,449 | IS2 (–) +5 bp | coding (135‑139/333 nt) | emrE → | multidrug/betaine/choline efflux transporter EmrE |
| RA | 579,004 | C→T | intergenic (‑111/+180) | borD ← / ← ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| RA | 631,633 | G→A | W580* (TGG→TGA) | cstA → | pyruvate transporter CstA |
| RA | 740,179 | C→T | Q225* (CAA→TAA) | phr → | deoxyribodipyrimidine photolyase |
| RA | 754,414 | C→T | D19N (GAT→AAT) | gltA ← | citrate synthase |
| RA | 760,723 | C→T | T673I (ACC→ATC) | sucA → | subunit of E1(0) component of 2‑oxoglutarate dehydrogenase |
| RA | 766,384 | C→T | T134M (ACG→ATG) | mngA → | 2‑O‑alpha‑mannosyl‑D‑glycerate specific PTS enzyme II |
| RA | 778,709 | C→T | P324S (CCA→TCA) | tolB → | Tol‑Pal system periplasmic protein TolB |
| RA | 794,059 | C→T | A196T (GCG→ACG) | modE ← | DNA‑binding transcriptional dual regulator ModE |
| RA | 796,154 | C→T | A98V (GCT→GTT) | modB → | molybdate ABC transporter membrane subunit |
| RA | 796,701 | C→T | P50S (CCG→TCG) | modC → | molybdate ABC transporter ATP binding subunit |
| RA | 799,479 | C→T | H298H (CAC→CAT) | pgl → | 6‑phosphogluconolactonase |
| RA | 802,954 | C→T | N356N (AAC→AAT) | ybhI → | putative tricarboxylate transporter |
| RA | 804,325 | C→T | Q275* (CAG→TAG) | ybhJ → | putative hydratase YbhJ |
| RA | 807,020 | C→T | G88S (GGC→AGC) | ybhC ← | outer membrane lipoprotein YbhC |
| RA | 823,811 | C→T | A229A (GCG→GCA) | ybhP ← | endonuclease/exonuclease/phosphatase domain‑containing protein YbhP |
| RA | 824,344 | C→T | G52S (GGC→AGC) | ybhP ← | endonuclease/exonuclease/phosphatase domain‑containing protein YbhP |
| RA | 855,711 | C→T | A12T (GCC→ACC) | ldtB ← | L,D‑transpeptidase LdtB |
| RA | 860,777 | C→T | R610R (CGG→CGA) | ybiW ← | putative pyruvate formate lyase |
| RA | 866,113 | C→T | Q84Q (CAG→CAA) | moeA ← | molybdopterin molybdotransferase |
| RA | 870,836 | C→T | P476S (CCG→TCG) | gsiB → | glutathione ABC transporter periplasmic binding protein |
| RA | 871,936 | C→T | P16L (CCA→CTA) | gsiD → | glutathione ABC transporter membrane subunit GsiD |
| RA | 881,411 | C→T | L229L (CTG→TTG) | dacC → | D‑alanyl‑D‑alanine carboxypeptidase DacC |
| RA | 881,604 | C→T | P293L (CCT→CTT) | dacC → | D‑alanyl‑D‑alanine carboxypeptidase DacC |
| RA | 885,883 | C→T | E83E (GAG→GAA) | ybjI ← | 5‑amino‑6‑(5‑phospho‑D‑ribitylamino)uracil phosphatase |
| RA | 896,567 | C→T | T145I (ACC→ATC) | potH → | putrescine ABC transporter membrane subunit PotH |
| RA | 899,899 | G→A | A226V (GCA→GTA) | artJ ← | L‑arginine ABC transporter periplasmic binding protein |
| RA | 905,521 | C→T | Y203Y (TAC→TAT) | amiD → | N‑acetylmuramoyl‑L‑alanine amidase D |
| RA | 906,136 | G→A | T206T (ACC→ACT) | ybjS ← | putative epimerase YbjS |
| RA | 911,782 | G→A | V123V (GTC→GTT) | hcr ← | NADH oxidoreductase |
| RA | 987,152 | G→T | intergenic (‑170/+433) | ompF ← / ← asnS | outer membrane porin F/asparagine‑‑tRNA ligase |
| RA | 1,051,992 | C→T | S49F (TCT→TTT) | ymcE → | protein YmcE |
| JC JC | 1,105,376 | IS2 (–) +5 bp | intergenic (+83/‑34) | csgC → / → ymdA | curlin chaperone/uncharacterized protein YmdA |
| RA | 1,107,648 | G→A | G432R (GGA→AGA) | clsC → | cardiolipin synthase C |
| RA | 1,196,220 | C→T | H366H (CAC→CAT) | icd → | isocitrate dehydrogenase |
| MC JC | 1,299,499 | Δ1,199 bp | insH21 | insH21 | |
| MC JC | 1,303,073 | Δ12 bp | coding (175‑186/921 nt) | oppB → | murein tripeptide ABC transporter/oligopeptide ABC transporter inner membrane subunit OppB |
| RA | 1,330,650 | G→A | P7S (CCC→TCC) | yciN ← | protein YciN |
| RA | 1,353,758 | T→A | D254V (GAT→GTT) | sapC ← | putrescine ABC exporter membrane protein SapC |
| RA | 1,401,843 | G→A | I471I (ATC→ATT) | abgB ← | p‑aminobenzoyl‑glutamate hydrolase subunit B |
| RA | 1,489,624 | G→A | G465S (GGC→AGC) | aldA → | aldehyde dehydrogenase A |
| RA | 1,494,388 | Δ1 bp | coding (684/924 nt) | ydcI ← | DNA‑binding transcriptional dual regulator YdcI |
| RA | 1,499,175 | G→A | G80S (GGC→AGC) | rimL → | ribosomal‑protein‑L12‑serine N‑acetyltransferase |
| RA | 1,509,605 | C→T | A33V (GCT→GTT) | hicB → | antitoxin of the HicA‑HicB toxin‑antitoxin system/ DNA‑binding transcriptional repressor HicB |
| RA | 1,512,277 | C→T | S208S (AGC→AGT) | ydcS → | putative ABC transporter periplasmic binding protein/polyhydroxybutyrate synthase |
| RA | 1,517,508 | G→T | V40V (GTG→GTT) | ortT → | orphan toxin OrtT |
| RA | 1,520,201 | C→T | intergenic (+137/‑61) | curA → / → mcbR | NADPH‑dependent curcumin/dihydrocurcumin reductase/DNA‑binding transcriptional dual regulator McbR |
| RA | 1,527,399 | C→T | intergenic (+247/‑2523) | yncH → / → ydcD | DUF5445 domain‑containing protein YncH/uncharacterized protein YdcD |
| RA | 1,528,248 | C→T | intergenic (+1096/‑1674) | yncH → / → ydcD | DUF5445 domain‑containing protein YncH/uncharacterized protein YdcD |
| RA | 1,560,104 | C→T | G276S (GGC→AGC) | ddpB ← | putative D,D‑dipeptide ABC transporter membrane subunit DdpB |
| RA | 1,586,597 | C→T | intergenic (‑111/+223) | ydeP ← / ← ydeQ | putative oxidoreductase YdeP/putative fimbrial adhesin protein YdeQ |
| RA | 1,611,898 | C→T | intergenic (‑44/+68) | dgcF ← / ← yneG | putative diguanylate cyclase DgcF/DUF4186 domain‑containing protein YneG |
| RA | 1,631,663 | C→T | S208N (AGC→AAC) | ydfJ ← | putative transporter YdfJ |
| RA | 1,640,078 | C→T | E96E (GAG→GAA) | ydfR ← | protein YdfR |
| RA | 1,643,094 | C→T | A50T (GCC→ACC) | ydfT ← | putative antitermination protein Q |
| RA | 1,643,729 | C→T | A192A (GCG→GCA) | ydfU ← | protein YdfU |
| RA | 1,652,331 | T→C | intergenic (+2346/+397) | ydfD → / ← ynfP | lysis protein/protein YnfP |
| RA | 1,667,887 | Δ1 bp | coding (678/1221 nt) | mlc ← | DNA‑binding transcriptional repressor Mlc |
| RA | 1,672,907 | C→T | W81* (TGG→TGA) | mdtI ← | multidrug/spermidine efflux pump membrane subunit MdtI |
| RA | 1,673,177 | C→T | A109T (GCG→ACG) | mdtJ ← | multidrug/spermidine efflux pump membrane subunit MdtJ |
| RA | 1,676,399 | C→T | R502H (CGC→CAC) | pntA ← | pyridine nucleotide transhydrogenase subunit alpha |
| RA | 1,684,291 | C→T | N11N (AAC→AAT) | tus → | DNA replication terminus site‑binding protein |
| RA | 1,697,394 | C→T | R216K (AGA→AAA) | hdhA ← | 7‑alpha‑hydroxysteroid dehydrogenase |
| RA | 1,697,862 | C→T | G60D (GGT→GAT) | hdhA ← | 7‑alpha‑hydroxysteroid dehydrogenase |
| RA | 1,700,296 | C→T | R314R (CGC→CGT) | malX → | PTS enzyme IIBC component MalX |
| RA | 1,703,008 | C→T | A259V (GCT→GTT) | add → | adenosine deaminase |
| RA | 1,718,435 | C→T | intergenic (‑40/+58) | mliC ← / ← anmK | inhibitor of c‑type lysozyme, putative lipoprotein/anhydro‑N‑acetylmuramic acid kinase |
| RA | 1,718,573 | C→T | G344R (GGA→AGA) | anmK ← | anhydro‑N‑acetylmuramic acid kinase |
| RA | 1,730,552 | C→T | A489V (GCC→GTC) | lhr → | ATP‑dependent helicase Lhr |
| RA | 1,732,395 | C→T | T1103T (ACC→ACT) | lhr → | ATP‑dependent helicase Lhr |
| RA | 1,732,436 | C→T | A1117V (GCC→GTC) | lhr → | ATP‑dependent helicase Lhr |
| RA | 1,753,721 | C→T | G37D (GGC→GAC) | ydhV ← | putative oxidoreductase YdhV |
| RA | 1,766,968 | C→T | R573H (CGC→CAC) | ydiJ ← | putative FAD‑linked oxidoreductase YdiJ |
| RA | 1,771,933 | C→T | A288V (GCT→GTT) | ydiM → | putative exporter YdiM |
| JC JC | 1,792,772 | IS2 (–) +5 bp | intergenic (‑41/+33) | nlpC ← / ← btuD | NlpC/P60 family lipoprotein NlpC/vitamin B12 ABC transporter ATP binding subunit |
| RA | 1,874,106 | G→A | S26F (TCC→TTC) | yoaI ← | protein YoaI |
| RA | 1,874,612 | G→A | V87V (GTG→GTA) | yeaL → | DUF441 domain‑containing inner membrane protein YeaL |
| RA | 1,878,973 | G→A | intergenic (+25/+34) | yoaJ → / ← yeaQ | uncharacterized protein YoaJ/PF04226 family protein YeaQ |
| RA | 1,882,058 | G→A | E49E (GAG→GAA) | dmlA → | D‑malate/3‑isopropylmalate dehydrogenase (decarboxylating) |
| RA | 1,882,236 | G→A | V109I (GTT→ATT) | dmlA → | D‑malate/3‑isopropylmalate dehydrogenase (decarboxylating) |
| RA | 1,893,700 | G→A | A112T (GCT→ACT) | yoaB → | RutC family protein YoaB |
| RA | 1,897,819 | G→A | V296V (GTG→GTA) | sdaA → | L‑serine deaminase I |
| RA | 1,900,390 | G→A | T399I (ACC→ATC) | yoaE ← | TerC family inner membrane protein YoaE |
| RA | 1,913,816 | G→A | T334I (ACC→ATC) | prc ← | tail‑specific protease |
| RA | 1,915,069 | G→A | P156S (CCT→TCT) | proQ ← | RNA chaperone ProQ |
| RA | 1,919,097 | G→A | G530R (GGA→AGA) | letB → | lipophilic envelope spanning tunnel |
| RA | 1,919,149 | G→A | R547H (CGT→CAT) | letB → | lipophilic envelope spanning tunnel |
| RA | 1,919,454 | G→A | V649I (GTC→ATC) | letB → | lipophilic envelope spanning tunnel |
| RA | 1,920,277 | G→A | A19T (GCG→ACG) | rsmF → | 16S rRNA m(5)C1407 methyltransferase |
| RA | 2,003,264 | C→T | E115K (GAA→AAA) | fliC ← | flagellar filament structural protein |
| RA | 2,032,423 | G→A | V219V (GTC→GTT) | yedJ ← | putative HD superfamily phosphohydrolase YedJ |
| RA | 2,066,455 | G→A | H277H (CAC→CAT) | insH6 ← | IS5 family transposase and trans‑activator |
| RA | 2,068,562 | G→A | intergenic (‑1277/‑73) | insH6 ← / → yoeA | IS5 family transposase and trans‑activator/TonB‑dependent receptor plug domain‑containing protein YoeA |
| RA | 2,089,325 | G→A | P47P (CCC→CCT) | yoeB ← | ribosome‑dependent mRNA interferase toxin YoeB |
| RA | 2,101,768 | G→A | intergenic (‑24/+127) | wbbL ← / ← insH7 | interrupted rhamnosyltransferase WbbL/IS5 family transposase and trans‑activator |
| RA | 2,109,071 | T→C | I172V (ATA→GTA) | rfbX ← | polyisoprenol‑linked O16‑antigen repeat unit flippase |
| RA | 2,118,475 | G→A | intergenic (‑71/+205) | wcaK ← / ← wzxC | colanic acid biosynthesis pyruvyl transferase WcaK/colanic acid repeat unit flippase |
| RA | 2,173,363 | Δ2 bp | intergenic (‑490/+918) | gatD ← / ← gatB | galactitol‑1‑phosphate 5‑dehydrogenase/galactitol‑specific PTS enzyme IIB component |
| JC JC | 2,269,876 | IS5 (+) +4 bp | intergenic (+309/‑100) | lpxT → / → mepS | lipid A‑core phosphotransferase/peptidoglycan endopeptidase/peptidoglycan L,D‑carboxypeptidase |
| JC JC | 2,319,850 | IS2 (+) +5 bp | coding (23‑27/2850 nt) | rcsC ← | histidine kinase RcsC |
| RA | 2,397,444 | G→A | Q908* (CAA→TAA) | nuoG ← | NADH:quinone oxidoreductase subunit G |
| JC JC | 2,406,780 | IS1 (–) +8 bp | intergenic (‑139/‑774) | lrhA ← / → alaA | DNA‑binding transcriptional dual regulator LrhA/glutamate‑‑pyruvate aminotransferase AlaA |
| MC JC | 2,558,699 | Δ6,790 bp | intZ–[eutA] | intZ, yffL, yffM, yffN, yffO, yffP, yffQ, yffR, yffS, [eutA] | |
| JC JC | 2,666,074 | IS1 (+) +9 bp | coding (640‑648/1281 nt) | csiE → | stationary phase‑inducible protein CsiE |
| RA | 2,777,983 | C→T | intergenic (+201/+163) | ypjF → / ← ypjA | toxin of the YpjF‑YfjZ toxin‑antitoxin system/adhesin‑like autotransporter YpjA |
| RA | 2,821,929 | G→A | S28F (TCC→TTC) | alaS ← | alanine‑‑tRNA ligase/DNA‑binding transcriptional repressor |
| RA | 2,845,026 | G→A | I482I (ATC→ATT) | hycE ← | formate hydrogenlyase subunit HycE |
| RA | 2,878,067 | C→T | intergenic (+449/+502) | iap → / ← cas2 | alkaline phosphatase isozyme conversion protein/CRISPR‑associated endoribonuclease Cas2 |
| RA | 2,965,034 | C→T | G41E (GGA→GAA) | thyA ← | thymidylate synthase |
| RA | 2,994,705 | T→C | intergenic (+849/+1667) | ygeI → / ← insD4 | protein YgeI/IS2 insertion element protein InsB |
| RA | 3,010,929 | G→A | G301D (GGC→GAC) | hyuA → | phenylhydantoinase |
| RA | 3,014,744 | G→A | A105V (GCG→GTG) | yqeC ← | uncharacterized protein YqeC |
| RA | 3,088,689 | G→A | E136K (GAA→AAA) | galP → | galactose:H(+) symporter |
| RA | 3,100,779 | G→A | intergenic (‑51/+125) | ansB ← / ← yggN | L‑asparaginase 2/DUF2884 domain‑containing protein YggN |
| RA | 3,104,589 | G→A | G53S (GGC→AGC) | mltC → | membrane‑bound lytic murein transglycosylase C |
| RA | 3,109,742 | C→T | L64L (CTA→TTA) | yqgA → | DUF554 domain‑containing protein YqgA |
| RA | 3,110,471 | G→A | intergenic (+30/+119) | pheV → / ← yghD | tRNA‑Phe/putative type II secretion system M‑type protein YghD |
| RA | 3,110,554 | C→T | intergenic (+113/+36) | pheV → / ← yghD | tRNA‑Phe/putative type II secretion system M‑type protein YghD |
| RA | 3,118,513 | G→A | R200R (CGC→CGT) | yghJ ← | putative lipoprotein YghJ |
| RA | 3,122,355 | G→A | A484V (GCC→GTC) | glcB ← | malate synthase G |
| RA | 3,138,318 | G→A | L69L (CTG→TTG) | gss ← | fused glutathionylspermidine amidase/glutathionylspermidine synthetase |
| RA | 3,147,042 | G→A | intergenic (‑305/+555) | yghW ← / ← yqhI | DUF2623 domain‑containing protein YghW/protein YqhI |
| RA | 3,160,223 | G→A | A308A (GCC→GCT) | ygiQ ← | radical SAM superfamily protein YgiQ |
| RA | 3,170,257 | G→A | A144T (GCT→ACT) | qseB → | DNA‑binding transcriptional activator QseB |
| RA | 3,177,260 | G→A | D7D (GAC→GAT) | yqiB ← | DUF1249 domain‑containing protein YqiB |
| RA | 3,182,069 | G→A | G122G (GGC→GGT) | ygiD ← | 4,5‑DOPA dioxygenase extradiol |
| RA | 3,182,822 | G→A | Q91Q (CAG→CAA) | zupT → | divalent metal ion transporter ZupT |
| RA | 3,194,674 | G→A | intergenic (+149/+47) | yqiK → / ← sibD | flotillin family inner membrane protein YqiK/small RNA SibD |
| RA | 3,211,635 | G→A | E177K (GAA→AAA) | dnaG → | DNA primase |
| RA | 3,268,970 | A→G | T186A (ACA→GCA) | yhaC → | uncharacterized protein YhaC |
| RA | 3,383,960 | C→T | Q103Q (CAG→CAA) | mdh ← | malate dehydrogenase |
| RA | 3,486,205 | C→A | T29K (ACG→AAG) | crp → | DNA‑binding transcriptional dual regulator CRP |
| RA | 3,560,455 | +G | intergenic (+589/+167) | rtcR → / ← glpG | DNA‑binding transcriptional activator RtcR/rhomboid protease GlpG |
| MC JC | 3,682,261 | Δ34 bp | coding (1154‑1187/1287 nt) | dctA ← | C4 dicarboxylate/orotate:H(+) symporter |
| JC JC | 3,737,137 | IS2 (+) +5 bp | coding (37‑41/825 nt) | bax ← | putative glycoside hydrolase Bax |
| RA | 3,758,882 | G→A | S327F (TCT→TTT) | selB ← | selenocysteyl‑tRNA‑specific translation elongation factor |
| RA | 3,843,293 | C→T | G166D (GGC→GAC) | adeQ ← | adenine transporter |
| RA | 3,846,964 | C→T | G68G (GGG→GGA) | uhpT ← | hexose‑6‑phosphate:phosphate antiporter |
| RA | 3,854,595 | C→T | A225V (GCC→GTC) | emrD → | multidrug efflux pump EmrD |
| RA | 3,896,003 | T→C | I203V (ATT→GTT) | adeP ← | adenine:H(+) symporter |
| RA | 4,007,812 | C→T | P19L (CCC→CTC) | rhtC → | L‑threonine exporter |
| RA | 4,019,367 | C→T | F171F (TTC→TTT) | ubiE → | bifunctional 2‑octaprenyl‑6‑methoxy‑1,4‑benzoquinol methylase and demethylmenaquinone methyltransferase |
| RA | 4,039,385 | C→T | noncoding (1867/2905 nt) | rrlA → | 23S ribosomal RNA |
| RA | 4,045,252 | C→T | P352S (CCG→TCG) | yihF → | DUF945 domain‑containing protein YihF |
| RA | 4,047,278 | C→T | P105S (CCG→TCG) | polA → | DNA polymerase I |
| RA | 4,049,777 | C→T | intergenic (+25/‑122) | polA → / → spf | DNA polymerase I/small regulatory RNA Spot 42 |
| RA | 4,055,452 | C→T | L296L (TTG→TTA) | glnL ← | protein histidine kinase NtrB |
| RA | 4,059,601 | C→T | P399S (CCG→TCG) | bipA → | 50S ribosomal subunit assembly factor BipA |
| RA | 4,061,998 | C→T | R278R (CGC→CGT) | yihM → | putative TIM barrel domain‑containing protein YihM |
| RA | 4,066,466 | C→T | P243P (CCG→CCA) | yihP ← | putative 2,3‑dihydroxypropane‑1‑sulfonate export protein |
| RA | 4,066,974 | C→T | G74D (GGC→GAC) | yihP ← | putative 2,3‑dihydroxypropane‑1‑sulfonate export protein |
| RA | 4,068,441 | C→T | G279D (GGC→GAC) | yihQ ← | sulfoquinovosidase |
| RA | 4,084,258 | C→T | S522N (AGC→AAC) | fdoG ← | formate dehydrogenase O subunit alpha |
| RA | 4,116,531 | C→T | G231D (GGC→GAC) | glpK ← | glycerol kinase |
| RA | 4,118,837 | C→T | intergenic (+77/+8) | zapB → / ← rraA | cell division factor ZapB/ribonuclease E inhibitor protein A |
| RA | 4,123,886 | C→T | A191T (GCC→ACC) | cytR ← | DNA‑binding transcriptional repressor CytR |
| RA | 4,127,469 | C→T | M142I (ATG→ATA) | yiiX ← | putative lipid‑binding hydrolase YiiX |
| JC JC | 4,135,180 | IS2 (–) +5 bp | coding (1346‑1350/2181 nt) | katG → | catalase/hydroperoxidase HPI |
| RA | 4,175,855 | C→T | intergenic (+26/‑89) | thrT → / → tufB | tRNA‑Thr/translation elongation factor Tu 2 |
| RA | 4,220,852 | G→A | L546F (CTT→TTT) | arpA ← | regulator of acetyl CoA synthetase |
| RA | 4,251,378 | G→A | intergenic (+904/‑1128) | malM → / → ubiC | maltose regulon periplasmic protein/chorismate lyase |
| RA | 4,258,208 | G→A | S156N (AGC→AAC) | dinF → | DNA damage‑inducible protein F |
| RA | 4,268,466 | G→A | intergenic (+159/+343) | tyrB → / ← yjbS | tyrosine aminotransferase/uncharacterized protein YjbS |
| RA | 4,271,710 | G→A | S721F (TCC→TTC) | uvrA ← | UvrABC excision nuclease subunit A |
| RA | 4,272,338 | G→A | L512L (CTG→TTG) | uvrA ← | UvrABC excision nuclease subunit A |
| RA | 4,296,382 | +C | intergenic (+588/+54) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,308,169 | G→A | R104C (CGT→TGT) | alsE ← | D‑allulose‑6‑phosphate 3‑epimerase |
| RA | 4,319,653 | G→A | F337F (TTC→TTT) | phnI ← | carbon‑phosphorus lyase core complex subunit PhnI |
| RA | 4,337,623 | G→A | Q103* (CAA→TAA) | adiY ← | DNA‑binding transcriptional activator AdiY |
| RA | 4,542,683 | Δ1 bp | intergenic (+50/‑432) | fimE → / → fimA | regulator for fimA/type 1 fimbriae major subunit |
| MC JC | 4,549,192 | Δ39 bp | coding (385‑423/903 nt) | fimH → | type 1 fimbriae D‑mannose specific adhesin |
| RA | 4,582,054 | C→T | C332Y (TGT→TAT) | hsdM ← | type I restriction enzyme EcoKI methylase subunit |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 145339 | 145407 | 69 | 2 [1] | [1] 2 | yadE | putative polysaccharide deacetylase lipoprotein YadE |
| * | * | ÷ | NC_000913 | 164552 | 164633 | 82 | 2 [1] | [1] 2 | hrpB/mrcB | RNA‑dependent NTPase HrpB/peptidoglycan glycosyltransferase/peptidoglycan DD‑transpeptidase MrcB |
| * | * | ÷ | NC_000913 | 176281 | 176321 | 41 | 2 [1] | [1] 2 | clcA | chloride:H(+) antiporter ClcA |
| * | * | ÷ | NC_000913 | 233061 | 233095 | 35 | 2 [1] | [1] 2 | mltD | membrane‑bound lytic murein transglycosylase D |
| * | * | ÷ | NC_000913 | 300187 | 300223 | 37 | 2 [1] | [0] 2 | paoC | aldehyde dehydrogenase: molybdenum cofactor‑binding subunit |
| * | * | ÷ | NC_000913 | 475676 | 475825 | 150 | 2 [1] | [1] 2 | ybaY | PF09619 family lipoprotein YbaY |
| * | * | ÷ | NC_000913 | 589835 | 589876 | 42 | 2 [1] | [1] 2 | nfrA | exopolysaccharide secretion system outer membrane protein NfrA |
| * | * | ÷ | NC_000913 | 624607 | 624653 | 47 | 2 [1] | [1] 2 | fepB/entC | ferric enterobactin ABC transporter periplasmic binding protein/isochorismate synthase EntC |
| * | * | ÷ | NC_000913 | 686091 | 686148 | 58 | 2 [1] | [1] 2 | gltJ | glutamate/aspartate ABC transporter membrane subunit GltJ |
| * | * | ÷ | NC_000913 | 863325 | 863401 | 77 | 2 [1] | [1] 2 | ybiY | putative pyruvate formate‑lyase activating enzyme YbiY |
| * | * | ÷ | NC_000913 | 953747 | 953856 | 110 | 2 [1] | [1] 2 | focA | formate channel FocA |
| * | * | ÷ | NC_000913 | 1073950 | 1074019 | 70 | 2 [1] | [0] 2 | [rutA] | [rutA] |
| * | * | ÷ | NC_000913 | 1196277 | 1211412 | 15136 | 2 [1] | [0] 2 | [icd]–mcrA | [icd],C0293,ymfD,ymfE,lit,intE,xisE,ymfH,ymfI,ymfJ,ymfK,ymfT,ymfL,ymfM,ymfN,ymfR,beeE,ymfQ,ycfK,tfaP,tfaE,pinE,mcrA |
| * | * | ÷ | NC_000913 | 1241495 | 1241575 | 81 | 2 [1] | [1] 2 | cvrA | putative K(+):H(+) antiporter |
| * | * | ÷ | NC_000913 | 1287092 | 1287150 | 59 | 3 [1] | [1] 2 | rttR tpr |
small RNA RttR protamine‑like protein |
| * | * | ÷ | NC_000913 | 1288177 | 1288208 | 32 | 2 [1] | [1] 2 | purU | formyltetrahydrofolate deformylase |
| * | * | ÷ | NC_000913 | 1293949 | 1294186 | 238 | 2 [1] | [1] 2 | [tdk] | [tdk] |
| * | * | ÷ | NC_000913 | 1351188 | 1351351 | 164 | 2 [1] | [1] 2 | fabI/ycjD | enoyl‑[acyl‑carrier‑protein] reductase/DUF559 domain‑containing protein YcjD |
| * | * | ÷ | NC_000913 | 1356104 | 1356155 | 52 | 2 [1] | [1] 2 | sapA | putative periplasmic binding protein SapA |
| * | * | ÷ | NC_000913 | 1391085 | 1391096 | 12 | 2 [1] | [1] 2 | ycjY | putative hydrolase YcjY |
| * | * | ÷ | NC_000913 | 1450345 | 1450470 | 126 | 2 [1] | [1] 2 | tynA | copper‑containing amine oxidase |
| * | * | ÷ | NC_000913 | 1507558 | 1507601 | 44 | 2 [1] | [0] 2 | rlhA | 23S rRNA 5‑hydroxycytidine C2501 synthase |
| * | * | ÷ | NC_000913 | 1575883 | 1576090 | 208 | 2 [0] | [1] 2 | yddB | putative TonB‑dependent receptor YddB |
| * | * | ÷ | NC_000913 | 1824896 | 1824949 | 54 | 2 [1] | [1] 2 | [ves] | [ves] |
| * | * | ÷ | NC_000913 | 1890031 | 1890107 | 77 | 2 [0] | [1] 2 | yeaY | Slp family lipoprotein YeaY |
| * | * | ÷ | NC_000913 | 1978495 | 1979270 | 776 | 11 [0] | [0] 15 | insB5–insA5 | insB5,insA5 |
| * | * | ÷ | NC_000913 | 2215164 | 2215189 | 26 | 2 [1] | [0] 2 | mlrA | DNA‑binding transcriptional activator MlrA |
| * | * | ÷ | NC_000913 | 2343346 | 2343388 | 43 | 2 [1] | [1] 2 | yfaL | putative autotransporter adhesin YfaL |
| * | * | ÷ | NC_000913 | 2403297 | 2403368 | 72 | 2 [1] | [1] 2 | nuoC | NADH:quinone oxidoreductase subunit CD |
| * | * | ÷ | NC_000913 | 2462548 | 2462548 | 1 | 2 [0] | [0] 2 | fadL | long‑chain fatty acid outer membrane channel/bacteriophage T2 receptor |
| * | * | ÷ | NC_000913 | 2462551 | 2462552 | 2 | 2 [0] | [0] 2 | fadL | long‑chain fatty acid outer membrane channel/bacteriophage T2 receptor |
| * | * | ÷ | NC_000913 | 2462559 | 2462559 | 1 | 2 [0] | [0] 2 | fadL | long‑chain fatty acid outer membrane channel/bacteriophage T2 receptor |
| * | * | ÷ | NC_000913 | 2462586 | 2462605 | 20 | 2 [0] | [0] 2 | fadL | long‑chain fatty acid outer membrane channel/bacteriophage T2 receptor |
| * | * | ÷ | NC_000913 | 2544422 | 2544469 | 48 | 2 [1] | [1] 2 | ucpA | oxidoreductase UcpA |
| * | * | ÷ | NC_000913 | 2581312 | 2581371 | 60 | 2 [1] | [1] 3 | tktB | transketolase 2 |
| * | * | ÷ | NC_000913 | 2591131 | 2591232 | 102 | 2 [1] | [1] 2 | ypfM/yffB | uncharacterized protein YpfM/putative reductase YffB |
| * | * | ÷ | NC_000913 | 2617600 | 2617657 | 58 | 2 [1] | [1] 2 | yfgD | putative oxidoreductase YfgD |
| * | * | ÷ | NC_000913 | 3046018 | 3046199 | 182 | 2 [1] | [1] 2 | [gcvP] | [gcvP] |
| * | * | ÷ | NC_000913 | 3135783 | 3135860 | 78 | 2 [1] | [1] 2 | pitB | metal phosphate:H(+) symporter PitB |
| * | * | ÷ | NC_000913 | 3239621 | 3239680 | 60 | 2 [1] | [1] 2 | alx/sstT | putative membrane‑bound redox modulator Alx/serine/threonine:Na(+) symporter |
| * | * | ÷ | NC_000913 | 3256662 | 3256689 | 28 | 2 [1] | [1] 3 | [cyuP] | [cyuP] |
| * | * | ÷ | NC_000913 | 3423861–3424234 | 3424478–3424238 | 5–618 | 2 [1] | [1] 2 | [rrlD] | [rrlD] |
| * | * | ÷ | NC_000913 | 3532262 | 3532294 | 33 | 2 [1] | [1] 2 | yhgE | putative transport protein YhgE |
| * | * | ÷ | NC_000913 | 3636657 | 3636692 | 36 | 2 [1] | [1] 2 | yhiN | putative oxidoreductase YhiN |
| * | * | ÷ | NC_000913 | 3781084 | 3781175 | 92 | 2 [0] | [1] 2 | lldD/trmL | L‑lactate dehydrogenase/tRNA (cytidine/uridine‑2'‑O)‑ribose methyltransferase |
| * | * | ÷ | NC_000913 | 3847517 | 3847575 | 59 | 2 [1] | [1] 2 | uhpC | inner membrane protein sensing glucose‑6‑phosphate |
| * | * | ÷ | NC_000913 | 3869397 | 3869434 | 38 | 2 [1] | [1] 2 | cbrA | colicin M resistance protein |
| * | * | ÷ | NC_000913 | 3908512 | 3908575 | 64 | 2 [1] | [1] 2 | [pstA] | [pstA] |
| * | * | ÷ | NC_000913 | 4004936 | 4004960 | 25 | 2 [1] | [1] 2 | pldA | outer membrane phospholipase A |
| * | * | ÷ | NC_000913 | 4027915 | 4028058 | 144 | 2 [1] | [1] 2 | fadA | 3‑ketoacyl‑CoA thiolase |
| * | * | ÷ | NC_000913 | 4123928 | 4123965 | 38 | 15 [0] | [1] 2 | cytR | DNA‑binding transcriptional repressor CytR |
| * | * | ÷ | NC_000913 | 4247700 | 4247757 | 58 | 2 [0] | [1] 2 | malK | maltose ABC transporter ATP binding subunit |
| * | * | ÷ | NC_000913 | 4401365 | 4401493 | 129 | 2 [1] | [1] 2 | hflX | ribosome rescue factor HflX |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 381260 = | NA (NA) | 14 (1.460) | 13/314 | 0.0 | NA | noncoding (1/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 382183 | NA (NA) | noncoding (924/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 382179 = | NA (NA) | 17 (1.800) | 14/310 | 0.0 | NA | noncoding (920/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 382590 | NA (NA) | noncoding (1331/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 1397238 | NA (NA) | 11 (1.150) | 10/314 | 0.1 | 100% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 1978494 | 0 (0.000) | intergenic (‑297/+24) | flhD/insB5 | DNA‑binding transcriptional dual regulator FlhD/IS1 family protein InsB | |||||
| * | ? | NC_000913 | 1979271 = | 0 (0.000) | 15 (1.570) | 13/314 | 0.0 | 100% | intergenic (‑56/‑482) | insA5/uspC | IS1 family protein InsA/universal stress protein C |
| ? | NC_000913 | = 2102947 | NA (NA) | pseudogene (443/446 nt) | wbbL | interrupted rhamnosyltransferase WbbL | |||||
| * | ? | NC_000913 | 2288919 = | NA (NA) | 17 (1.790) | 13/312 | 0.0 | 94.4% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 4536236 = | 1 (0.110) | intergenic (‑2183/‑361) | topAI/ythB | toxin of the TopAI‑YjhQ toxin‑antitoxin system, TopA inhibitor/protein YthB | |||||
| * | ? | NC_000913 | = 4123927 | 0 (0.000) | 15 (1.580) | 8/312 | 0.1 | 100% | coding (530/1026 nt) | cytR | DNA‑binding transcriptional repressor CytR |
| ? | NC_000913 | = 4499511 | NA (NA) | noncoding (1331/1331 nt) | IS2 | repeat region | |||||