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 | annotation | gene | description |
| RA | 159 | A→G | intergenic (–/‑31) | – / → thrL | –/thr operon leader peptide |
| RA | 92,770 | T→C | V453A (GTT→GCT) | ftsI → | peptidoglycan DD‑transpeptidase FtsI |
| RA | 101,209 | A→G | T149A (ACC→GCC) | murC → | UDP‑N‑acetylmuramate‑‑L‑alanine ligase |
| RA | 103,619 | G→A | Q155Q (CAG→CAA) | ftsQ → | cell division protein FtsQ |
| RA | 106,748 | G→A | T64T (ACG→ACA) | lpxC → | UDP‑3‑O‑acyl‑N‑acetylglucosamine deacetylase |
| RA | 113,959 | T→C | G172G (GGT→GGC) | guaC → | GMP reductase |
| RA | 129,575 | A→G | R562R (CGT→CGC) | yacH ← | DUF3300 domain‑containing protein YacH |
| RA | 140,912 | A→G | I105T (ATC→ACC) | gcd ← | quinoprotein glucose dehydrogenase |
| RA | 147,901 | T→C | intergenic (+31/+43) | rpnC → / ← panC | recombination‑promoting nuclease RpnC/pantothenate synthetase |
| RA | 149,662 | (G)5→4 | intergenic (‑61/+53) | panB ← / ← yadC | 3‑methyl‑2‑oxobutanoate hydroxymethyltransferase/fimbrial tip‑adhesin YadC |
| RA | 154,784 | C→T | A215T (GCC→ACC) | htrE ← | putative fimbrial usher protein HtrE |
| RA | 156,672 | T→C | D71G (GAC→GGC) | yadN ← | putative fimbrial protein YadN |
| RA | 209,049 | A→G | A143A (GCA→GCG) | accA → | acetyl‑CoA carboxyltransferase subunit alpha |
| RA | 220,801 | T→C | Q43R (CAG→CGG) | metQ ← | L‑methionine/D‑methionine ABC transporter membrane anchored binding protein |
| RA | 230,935 | C→T | intergenic (‑54/‑187) | yafC ← / → yafD | putative LysR family transcriptional regulator YafC/endonuclease/exonuclease/phosphatase domain‑containing protein YafD |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 276,394 | C→T | A357V (GCC→GTC) | mmuP → | S‑methyl‑L‑methionine transporter |
| RA | 279,227 | T→A | Q152L (CAG→CTG) | insB‑2 ← | IS1 protein InsB |
| RA | 300,801 | (G)5→6 | coding (134/2199 nt) | paoC ← | aldehyde dehydrogenase: molybdenum cofactor‑binding subunit |
| RA | 302,807 | C→T | intergenic (‑234/‑184) | paoA ← / → yagU | aldehyde dehydrogenase, Fe‑S subunit/inner membrane protein that contributes to acid resistance |
| RA | 334,384 | G→A | A17V (GCG→GTG) | yahB ← | putative LysR‑type DNA‑binding transcriptional regulator YahB |
| RA | 364,488 | A→G | G606G (GGT→GGC) | lacZ ← | beta‑galactosidase |
| RA | 407,501 | A→G | Y25C (TAC→TGC) | aroM → | protein AroM |
| RA | 453,382 | A→G | V55A (GTA→GCA) | ampG ← | muropeptide:H(+) symporter |
| RA | 497,853 | (C)5→4 | intergenic (+34/‑202) | adk → / → hemH | adenylate kinase/ferrochelatase |
| RA | 522,018 | A→G | T535A (ACA→GCA) | ybbP → | putative ABC transporter membrane subunit YbbP |
| RA | 527,577 | T→C | intergenic (+36/‑4) | rhsD → / → ybbC | protein RhsD/PF15631 family protein YbbC |
| RA | 542,354 | C→T | A156V (GCC→GTC) | glxK → | glycerate 2‑kinase 2 |
| RA | 550,730 | A→G | M98V (ATG→GTG) | ybcF → | putative carbamate kinase |
| RA | 606,453 | T→C | T311A (ACC→GCC) | ybdK ← | carboxylate‑amine ligase |
| RA | 663,161 | A→G | V268A (GTA→GCA) | dacA ← | D‑alanyl‑D‑alanine carboxypeptidase DacA |
| RA | 729,098 | C→T | intergenic (‑277/‑36) | kdpF ← / → ybfA | K(+) transporting P‑type ATPase subunit KdpF/DUF2517 domain‑containing protein YbfA |
| RA | 746,247 | A→G | S105G (AGC→GGC) | nei → | endonuclease VIII |
| RA | 775,366 | A→G | K72E (AAA→GAA) | tolQ → | Tol‑Pal system protein TolQ |
| RA | 777,431 | A→G | T364A (ACG→GCG) | tolA → | Tol‑Pal system protein TolA |
| RA | 805,415 | G→A | G638D (GGC→GAC) | ybhJ → | putative hydratase YbhJ |
| RA | 822,424 | C→T | V25V (GTG→GTA) | ybhN ← | conserved inner membrane protein YbhN |
| RA | 868,480 | A→G | T321A (ACC→GCC) | gsiA → | glutathione ABC transporter ATP binding subunit GsiA |
| RA | 872,495 | T→C | I202I (ATT→ATC) | gsiD → | glutathione ABC transporter membrane subunit GsiD |
| RA | 874,444 | A→G | E489G (GAA→GGA) | pdeI → | putative c‑di‑GMP phosphodiesterase PdeI |
| RA | 883,918 | T→C | R82R (CGT→CGC) | mdfA → | multidrug efflux pump MdfA/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 907,475 | G→A | L270L (CTG→TTG) | ybjT ← | putative NAD(P)‑dependent oxidoreductase YbjT |
| RA | 931,769 | C→T | P94P (CCG→CCA) | trxB ← | thioredoxin reductase |
| RA | 932,340 | (A)8→7 | intergenic (‑290/‑255) | trxB ← / → lrp | thioredoxin reductase/DNA‑binding transcriptional dual regulator Lrp |
| RA | 973,211 | C→T | R64H (CGT→CAT) | elyC ← | envelope biogenesis factor |
| RA | 976,162 | A→G | T181A (ACC→GCC) | mukE → | chromosome partitioning protein MukE |
| RA | 992,541 | A→G | V640V (GTA→GTG) | pepN → | aminopeptidase N |
| RA | 1,002,236 | C→T | H144Y (CAT→TAT) | elfG → | putative fimbrial‑like adhesin protein |
| RA | 1,010,898 | C→T | A312V (GCC→GTC) | uup → | ATP‑binding protein with possible role in replication |
| RA | 1,043,741 | A→G | V157A (GTT→GCT) | etk ← | protein‑tyrosine kinase Etk |
| RA | 1,066,855 | A→G | intergenic (+29/+9) | agp → / ← yccJ | glucose‑1‑phosphatase/PF13993 family protein YccJ |
| RA | 1,078,343 | G→A | T180T (ACC→ACT) | putA ← | fused DNA‑binding transcriptional repressor/proline dehydrogenase/1‑pyrroline‑5‑carboxylate dehydrogenase PutA |
| RA | 1,093,358 | (G)6→5 | coding (483/1359 nt) | dgcT → | putative diguanylate cyclase DgcT |
| RA | 1,096,687 | G→A | W282* (TGG→TAG) | ycdU → | uncharacterized protein YcdU |
| RA | 1,103,216 | (T)7→8 | intergenic (‑20/‑735) | csgD ← / → csgB | DNA‑binding transcriptional dual regulator CsgD/curlin, minor subunit |
| RA | 1,140,414 | A→G | T128A (ACT→GCT) | flgL → | flagellar hook‑filament junction protein 2 |
| RA | 1,143,140 | T→C | T410A (ACT→GCT) | rne ← | ribonuclease E |
| RA | 1,145,876 | C→T | Q313* (CAA→TAA) | rluC → | 23S rRNA pseudouridine(955/2504/2580) synthase |
| RA | 1,159,853 | A→G | S567P (TCC→CCC) | fhuE ← | ferric coprogen/ferric rhodotorulic acid outer membrane transporter |
| RA | 1,176,647 | A→G | N10S (AAC→AGC) | lolD → | lipoprotein release complex ‑ ATP binding subunit |
| RA | 1,195,989 | C→T | I289I (ATC→ATT) | icd → | isocitrate dehydrogenase |
| RA | 1,220,971 | G→A | pseudogene (1371/2648 nt) | ycgH → | putative transporter component, N‑terminal fragment |
| RA | 1,274,892 | T→C | V370A (GTG→GCG) | ychO → | putative invasin YchO |
| RA | 1,341,395 | A→G | T280A (ACC→GCC) | lapB → | lipopolysaccharide assembly protein B |
| RA | 1,356,351 | C→T | G254S (GGC→AGC) | sapA ← | putative periplasmic binding protein SapA |
| RA | 1,370,044 | (T)9→8 | intergenic (+41/‑172) | pspE → / → ycjM | thiosulfate sulfurtransferase PspE/glucosylglycerate phosphorylase |
| RA | 1,378,150 | C→T | A89A (GCC→GCT) | ycjT → | kojibiose phosphorylase |
| RA | 1,394,686 | A→G | N487S (AAC→AGC) | mppA → | murein tripeptide ABC transporter periplasmic binding protein |
| RA | 1,420,793 | (G)6→8 | coding (110/423 nt) | ydaT → | Rac prophage; protein YdaT |
| RA | 1,425,603 | T→C | V76A (GTT→GCT) | ynaK → | Rac prophage; ParB‑like nuclease domain‑containing protein YnaK |
| RA | 1,449,340 | T→C | V670V (GTA→GTG) | tynA ← | copper‑containing amine oxidase |
| RA | 1,452,425 | T→C | A406A (GCA→GCG) | paaZ ← | oxepin‑CoA hydrolase/3‑oxo‑5,6‑dehydrosuberyl‑CoA semialdehyde dehydrogenase |
| RA | 1,470,785 | C→T | pseudogene (267/3495 nt) | ydbA → | putative outer membrane protein, N‑terminal fragment |
| RA | 1,512,239 | T→G | L196V (TTG→GTG) | ydcS → | putative ABC transporter periplasmic binding protein/polyhydroxybutyrate synthase |
| RA | 1,541,351 | C→T | E414K (GAA→AAA) | narZ ← | nitrate reductase Z subunit alpha |
| RA | 1,541,596 | C→T | R332H (CGC→CAC) | narZ ← | nitrate reductase Z subunit alpha |
| RA | 1,568,560 | T→C | Q88Q (CAA→CAG) | yddW ← | putative lipoprotein YddW |
| RA | 1,594,256 | (C)8→10 | pseudogene (3831/5422 nt) | yneO ← | AIDA‑I family autotransporter YneO |
| RA | 1,601,601 | (G)5→6 | coding (112/1536 nt) | lsrA → | Autoinducer‑2 ABC transporter ATP binding subunit |
| RA | 1,634,642 | C→T | G82S (GGC→AGC) | tfaQ ← | Qin prophage; putative tail fiber assembly protein TfaQ |
| RA | 1,685,542 | (C)6→5 | coding (1047/1404 nt) | fumC ← | fumarase C |
| RA | 1,689,211 | A→G | E212E (GAA→GAG) | manA → | mannose‑6‑phosphate isomerase |
| RA | 1,696,376 | A→G | intergenic (‑305/+86) | uidA ← / ← uidR | beta‑glucuronidase/DNA‑binding transcriptional repressor UidR |
| RA | 1,714,386 | T→C | F4L (TTC→CTC) | gstA → | glutathione S‑transferase GstA |
| RA | 1,765,577 | T→C | N19S (AAC→AGC) | menI ← | 1,4‑dihydroxy‑2‑naphthoyl‑CoA hydrolase |
| RA | 1,808,148 | A→G | D118G (GAC→GGC) | yniA → | putative kinase YniA |
| RA | 1,862,296 | T→C | H45R (CAC→CGC) | msrB ← | methionine sulfoxide reductase B |
| RA | 1,873,384 | A→G | K448K (AAA→AAG) | dgcJ → | putative diguanylate cyclase DgcJ |
| RA | 1,879,225 | G→A | L11F (CTT→TTT) | yeaQ ← | PF04226 family protein YeaQ |
| JC JC | 1,879,829 | Δ1 bp :: IS186 (–) +6 bp :: Δ1 bp | coding (115‑120/360 nt) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| RA | 1,880,220 | C→G | Q180H (CAG→CAC) | leuE ← | leucine exporter |
| RA | 1,882,057 | A→G | E49G (GAG→GGG) | dmlA → | D‑malate/3‑isopropylmalate dehydrogenase (decarboxylating) |
| RA | 1,888,409 | T→C | G446G (GGA→GGG) | fadD ← | fatty acyl‑CoA synthetase |
| RA | 1,890,467 | A→G | G22G (GGT→GGC) | yeaY ← | Slp family lipoprotein YeaY |
| RA | 1,915,961 | T→C | V56V (GTA→GTG) | msrC ← | free methionine‑(R)‑sulfoxide reductase |
| RA | 1,941,755 | T→C | T277A (ACG→GCG) | znuA ← | Zn(2(+)) ABC transporter periplasmic binding protein |
| RA | 1,945,195 | G→A | A54A (GCC→GCT) | ruvB ← | Holliday junction branch migration complex subunit RuvB |
| RA | 1,946,665 | A→C | T139P (ACG→CCG) | yebB → | putative papain‑like amidase YebB |
| RA | 1,954,576 | T→C | intergenic (+163/+2) | cmoB → / ← torZ | tRNA U34 carboxymethyltransferase/trimethylamine N‑oxide reductase 2 |
| RA | 1,956,094 | T→C | Q305R (CAG→CGG) | torZ ← | trimethylamine N‑oxide reductase 2 |
| MC JC | 1,978,503 | Δ776 bp | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 1,997,416 | C→T | G133G (GGG→GGA) | tcyN ← | cystine ABC transporter ATP binding subunit |
| RA | 2,025,579 | T→C | S23S (AGT→AGC) | yedP → | putative mannosyl‑3‑phosphoglycerate phosphatase |
| RA | 2,074,362 | (C)6→7 | coding (2824/3120 nt) | flu → | CP4‑44 prophage; self recognizing antigen 43 (Ag43) autotransporter |
| RA | 2,107,310 | A→G | R340R (CGT→CGC) | glf ← | UDP‑galactopyranose mutase |
| RA | 2,165,573 | (C)6→7 | intergenic (+52/‑95) | yegP → / → yegQ | DUF1508 domain‑containing protein YegP/putative peptidase YegQ |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,237,065 | T→C | N230S (AAC→AGC) | mglC ← | D‑galactose/methyl‑galactoside ABC transporter membrane subunit |
| RA | 2,238,041 | T→C | I417V (ATT→GTT) | mglA ← | D‑galactose/methyl‑galactoside ABC transporter ATP binding subunit |
| RA | 2,245,388 | T→C | Y461C (TAC→TGC) | cirA ← | ferric dihyroxybenzoylserine outer membrane transporter |
| RA | 2,309,762 | A→G | L215P (CTG→CCG) | ada ← | DNA‑binding transcriptional dual regulator/DNA repair protein Ada |
| RA | 2,336,441 | G→A | S68S (AGC→AGT) | yfaA ← | DUF2138 domain‑containing protein YfaA |
| RA | 2,337,728 | T→C | K565E (AAA→GAA) | gyrA ← | DNA gyrase subunit A |
| RA | 2,379,360 | T→C | L428L (TTA→TTG) | menF ← | isochorismate synthase MenF |
| RA | 2,394,460 | T→C | N196S (AAC→AGC) | nuoL ← | NADH:quinone oxidoreductase subunit L |
| RA | 2,431,067 | T→C | Q206Q (CAA→CAG) | dedD ← | cell division protein DedD |
| RA | 2,436,415 | T→C | T79A (ACC→GCC) | usg ← | putative semialdehyde dehydrogenase Usg |
| RA | 2,446,579 | T→C | T299A (ACC→GCC) | aroC ← | chorismate synthase |
| RA | 2,462,889 | (C)9→10 | intergenic (+243/‑123) | fadL → / → yfdF | long‑chain fatty acid outer membrane channel/bacteriophage T2 receptor/protein YfdF |
| RA | 2,473,350 | G→A | intergenic (‑104/‑254) | yfdO ← / → yfdP | CPS‑53 (KpLE1) prophage; putative defective phage replication protein O/CPS‑53 (KpLE1) prophage; protein YfdP |
| RA | 2,492,667 | G→A | V196V (GTC→GTT) | frc ← | formyl‑CoA transferase |
| RA | 2,527,823 | T→C | V293A (GTG→GCG) | yfeH → | putative solute:Na(+) symporter |
| RA | 2,531,591 | G→A | M43I (ATG→ATA) | cysZ → | sulfate:H(+) symporter |
| RA | 2,550,910 | T→C | T103A (ACG→GCG) | yfeY ← | DUF1131 domain‑containing lipoprotein YfeY |
| RA | 2,561,890 | G→A | R89H (CGC→CAC) | yffN → | CPZ‑55 prophage; uncharacterized protein YffN |
| RA | 2,578,847 | (A)8→9 | coding (182/951 nt) | talA → | transaldolase A |
| RA | 2,591,002 | T→C | intergenic (‑136/‑245) | ypfM ← / → yffB | uncharacterized protein YpfM/putative reductase YffB |
| RA | 2,601,608 | A→G | E136E (GAA→GAG) | hyfA → | hydrogenase 4 component A |
| RA | 2,614,706 | T→C | M258T (ATG→ACG) | focB → | putative formate transporter |
| RA | 2,615,702 | T→C | Q60Q (CAA→CAG) | yfgO ← | putative transporter YfgO |
| RA | 2,624,731 | T→C | V563A (GTT→GCT) | ppk → | polyphosphate kinase |
| RA | 2,625,117 | G→A | M1M (ATG→ATA) † | ppx → | exopolyphosphatase |
| RA | 2,625,141 | T→C | R9R (CGT→CGC) | ppx → | exopolyphosphatase |
| RA | 2,640,662 | A→G | intergenic (‑87/+24) | hisS ← / ← ispG | histidine‑‑tRNA ligase/(E)‑4‑hydroxy‑3‑methylbut‑2‑enyl‑diphosphate synthase (flavodoxin) |
| RA | 2,644,561 | T→C | T102A (ACT→GCT) | ndk ← | nucleoside diphosphate kinase |
| RA | 2,645,282 | G→A | P682S (CCG→TCG) | pbpC ← | peptidoglycan glycosyltransferase PbpC |
| RA | 2,666,093 | T→C | V220A (GTT→GCT) | csiE → | stationary phase inducible protein CsiE |
| RA | 2,698,929 | (A)5→6 | coding (171/849 nt) | yfhH → | putative DNA‑binding transcriptional regulator YfhH |
| RA | 2,699,776 | T→C | C38C (TGT→TGC) | yfhL → | putative 4Fe‑4S cluster‑containing protein YfhL |
| RA | 2,707,690 | G→A | R38C (CGC→TGC) | rseC ← | protein RseC |
| RA | 2,738,583 | T→C | F280S (TTT→TCT) | pheA → | fused chorismate mutase/prephenate dehydratase |
| JC | 2,767,507 | (C)7→10 | intergenic (+152/‑203) | rnlB → / → yfjP | CP4‑57 prophage; antitoxin RnlB/CP4‑57 prophage; putative GTP‑binding protein YfjP |
| RA | 2,769,457 | G→A | A265T (GCA→ACA) | yfjQ → | CP4‑57 prophage; protein YfjQ |
| RA | 2,791,898 | T→C | V209A (GTC→GCC) | gabD → | NADP(+)‑dependent succinate‑semialdehyde dehydrogenase |
| RA | 2,811,134 | A→G | H122R (CAC→CGC) | mprA → | DNA‑binding transcriptional repressor MprA |
| RA | 2,832,355 | G→A | intergenic (‑66/‑121) | norR ← / → norV | DNA‑binding transcriptional dual regulator NorR/anaerobic nitric oxide reductase flavorubredoxin |
| MC JC | 2,857,096 | Δ2,538 bp | coding (4‑2541/2562 nt) | mutS → | DNA mismatch repair protein MutS |
| RA | 2,888,020 | T→C | K98R (AAG→AGG) | cysH ← | phosphoadenosine phosphosulfate reductase |
| RA | 2,890,711 | T→C | E396E (GAA→GAG) | cysJ ← | sulfite reductase, flavoprotein subunit |
| RA | 2,897,037 | A→G | G278G (GGT→GGC) | ygcS ← | putative transporter YgcS |
| RA | 2,898,921 | T→C | T166T (ACA→ACG) | ygcU ← | putative FAD‑containing dehydrogenase |
| RA | 2,949,993 | (T)5→6 | coding (752/1332 nt) | argA → | N‑acetylglutamate synthase |
| RA | 3,013,671 | G→A | P190L (CCC→CTC) | yqeB ← | XdhC‑CoxI family protein YqeB |
| RA | 3,068,157 | T→C | intergenic (‑77/+16) | yggE ← / ← argO | uncharacterized protein YggE/L‑arginine exporter |
| RA | 3,074,585 | T→C | L35L (TTA→TTG) | yggC ← | P‑loop NTPase domain‑containing protein YggC |
| RA | 3,076,370 | (T)6→7 | coding (1087/1278 nt) | yggP ← | putative zinc‑binding dehydrogenase YggP |
| RA | 3,083,475 | T→C | H108R (CAC→CGC) | speB ← | agmatinase |
| RA | 3,093,932 | T→C | intergenic (+16/+168) | yqgF → / ← yggR | ribonuclease H‑like domain containing nuclease/Type II/IV secretion system family protein |
| RA | 3,115,233 | T→C | T1294A (ACG→GCG) | yghJ ← | putative lipoprotein YghJ |
| RA | 3,134,803 | A→G | T225A (ACC→GCC) | yghT → | putative ATP‑binding protein YghT |
| RA | 3,158,553 | (A)5→6 | coding (904/927 nt) | yqhG → | DUF3828 domain‑containing protein YqhG |
| RA | 3,195,534 | T→C | D407G (GAC→GGC) | rfaE ← | fused heptose 7‑phosphate kinase/heptose 1‑phosphate adenyltransferase |
| RA | 3,238,067 | T→C | S253P (TCT→CCT) | ygjR → | putative oxidoreductase YgjR |
| RA | 3,240,984 | (G)7→8 | coding (1041/1245 nt) | sstT → | serine/threonine:Na(+) symporter |
| RA | 3,264,839 | T→A | Y60F (TAC→TTC) | tdcC ← | threonine/serine:H(+) symporter |
| RA | 3,265,564 | A→T | D155E (GAT→GAA) | tdcB ← | catabolic threonine dehydratase |
| RA | 3,267,015 | T→C | E17E (GAA→GAG) | tdcA ← | DNA‑binding transcriptional activator TdcA |
| RA | 3,289,090 | A→G | T93A (ACA→GCA) | yraJ → | putative fimbrial usher protein YraJ |
| RA | 3,304,813 | (C)7→9 | coding (1005/1245 nt) | mtr ← | tryptophan:H(+) symporter Mtr |
| RA | 3,312,238 | G→A | I180I (ATC→ATT) | truB ← | tRNA pseudouridine(55) synthase |
| RA | 3,321,189 | A→G | V142A (GTG→GCG) | yhbX ← | putative hydrolase, inner membrane |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,369,224 | C→T | M85I (ATG→ATA) | yhcH ← | DUF386 domain‑containing protein YhcH |
| RA | 3,379,266 | (C)7→6 | coding (732/1128 nt) | zapE ← | cell division factor ZapE with ATPase activity |
| RA | 3,388,726 | A→G | V134A (GTT→GCT) | aaeA ← | aromatic carboxylic acid efflux pump membrane fusion protein |
| RA | 3,389,676 | A→G | T53A (ACA→GCA) | aaeR → | LysR‑type transcriptional regulator AaeR |
| RA | 3,465,072 | A→G | N384S (AAC→AGC) | gspL → | Type II secretion system protein GspL |
| RA | 3,538,348 | G→C | A322P (GCC→CCC) | yhgF → | putative RNA‑binding protein YhgF |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,605,983 | A→G | Y78C (TAC→TGC) | yhhN → | conserved inner membrane enzyme YhhN |
| RA | 3,612,265 | T→C | V134A (GTT→GCT) | yhhT → | putative transporter YhhT |
| RA | 3,619,119 | T→A | intergenic (+130/‑73) | nikR → / → rhsB | DNA‑binding transcriptional repressor NikR/rhs element protein RhsB |
| RA | 3,632,224 | T→C | N123D (AAT→GAT) | yhiJ ← | DUF4049 domain‑containing protein YhiJ |
| RA | 3,636,286 | (C)6→5 | coding (1125/1203 nt) | yhiN ← | putative oxidoreductase YhiN |
| RA | 3,668,536 | A→G | V218A (GTC→GCC) | ccp ← | cytochrome c peroxidase |
| RA | 3,673,861 | T→C | V167A (GTC→GCC) | yhjD → | putative transporter YhjD |
| RA | 3,685,008 | T→C | H204R (CAC→CGC) | pdeK ← | putative c‑di‑GMP phosphodiesterase PdeK |
| RA | 3,694,567 | A→G | W224R (TGG→CGG) | bcsA ← | cellulose synthase catalytic subunit |
| RA | 3,696,540 | T→C | V28A (GTC→GCC) | bcsE → | c‑di‑GMP‑binding protein BcsE |
| RA | 3,699,879 | C→T | P556S (CCT→TCT) | bcsG → | cellulose phosphoethanolamine transferase |
| RA | 3,718,895 | T→C | E50E (GAA→GAG) | yiaF ← | DUF3053 domain‑containing protein YiaF |
| RA | 3,724,951 | T→C | N123S (AAC→AGC) | glyQ ← | glycine‑‑tRNA ligase subunit alpha |
| RA | 3,729,603 | G→A | S388F (TCC→TTC) | xylA ← | xylose isomerase |
| RA | 3,743,007 | (A)5→4 | coding (275/999 nt) | yiaK → | 2,3‑diketo‑L‑gulonate reductase |
| RA | 3,795,662 | A→G | N245S (AAC→AGC) | waaF → | ADP‑heptose‑‑LPS heptosyltransferase 2 |
| RA | 3,801,790 | (A)7→6 | coding (210/1017 nt) | waaJ ← | UDP‑glucose:(glucosyl)LPS alpha‑1,2‑glucosyltransferase |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,818,188 | T→C | H143H (CAT→CAC) | dinD → | DNA damage‑inducible protein D |
| RA | 3,833,939 | T→C | Y200C (TAC→TGC) | yicI ← | alpha‑D‑xyloside xylohydrolase |
| RA | 3,860,630 | (C)5→4 | coding (348/894 nt) | yidL → | putative DNA‑binding transcriptional regulator YidL |
| RA | 3,873,948 | C→T | G176D (GGT→GAT) | dgoK ← | 2‑dehydro‑3‑deoxygalactonokinase |
| RA | 3,924,470 | A→G | G388G (GGT→GGC) | mnmG ← | 5‑carboxymethylaminomethyluridine‑tRNA synthase subunit MnmG |
| RA | 3,954,120 | C→A | Q215K (CAG→AAG) | ilvD → | dihydroxy‑acid dehydratase |
| RA | 3,956,754 | T→C | V475A (GTA→GCA) | ilvA → | threonine deaminase |
| RA | 3,970,845 | A→G | D238G (GAC→GGC) | wecB → | UDP‑N‑acetylglucosamine 2‑epimerase |
| RA | 4,104,535 | A→G | R147R (CGT→CGC) | cpxA ← | sensory histidine kinase CpxA |
| RA | 4,104,922 | C→T | A18A (GCG→GCA) | cpxA ← | sensory histidine kinase CpxA |
| RA | 4,157,986 | A→G | V379V (GTA→GTG) | argH → | argininosuccinate lyase |
| RA | 4,190,856 | T→C | Q338R (CAG→CGG) | thiH ← | 2‑iminoacetate synthase |
| RA | 4,199,676 | C→T | T58M (ACG→ATG) | yjaG → | conserved protein YjaG |
| RA | 4,261,093 | A→G | G165G (GGA→GGG) | yjbM → | uncharacterized protein YjbM |
| RA | 4,273,541 | A→G | L111L (TTA→CTA) | uvrA ← | excision nuclease subunit A |
| RA | 4,275,415 | A→G | intergenic (‑374/‑56) | yjcB ← / → pdeC | uncharacterized protein YjcB/c‑di‑GMP phosphodiesterase PdeC |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,310,738 | A→G | G81G (GGT→GGC) | alsA ← | D‑allose ABC transporter ATP binding subunit |
| RA | 4,330,361 | A→G | intergenic (+123/‑141) | yjcZ → / → proP | uncharacterized protein YjcZ/osmolyte:H(+) symporter ProP |
| RA | 4,331,389 | C→T | H296H (CAC→CAT) | proP → | osmolyte:H(+) symporter ProP |
| RA | 4,416,352 | G→A | intergenic (‑60/+89) | yjfN ← / ← bsmA | protease activator/DUF1471 domain‑containing putative lipoprotein BsmA |
| RA | 4,445,549 | A→G | T480A (ACC→GCC) | tamB → | translocation and assembly module subunit TamB |
| RA | 4,480,101 | A→G | L124L (TTA→TTG) | yjgN → | conserved inner membrane protein YjgN |
| JC | 4,517,951 | (C)6→9 | coding (285/522 nt) | fecI ← | RNA polymerase sigma factor FecI |
| RA | 4,566,339 | (C)6→7 | coding (908/1281 nt) | yjiN ← | DUF445 domain‑containing protein YjiN |
| RA | 4,608,268 | T→C | S28S (AGT→AGC) | rimI → | ribosomal‑protein‑S18‑alanine N‑acetyltransferase |
| RA | 4,609,828 | A→G | T139A (ACC→GCC) | prfC → | peptide chain release factor RF3 |
| RA | 4,619,309 | A→G | M361V (ATG→GTG) | deoA → | thymidine phosphorylase |
| RA | 4,639,160 | T→C | L328P (CTG→CCG) | creD → | putative inner membrane protein |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 1209603 | 1209618 | 16 | 52 [0] | [0] 85 | stfE | e14 prophage; putative side tail fiber protein fragment |
| * | * | ÷ | NC_000913 | 3423750–3424234 | 3424523–3424239 | 6–774 | 16 [12] | [11] 13 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| * | * | ÷ | NC_000913 | 3619350–3621077 | 3622203–3621087 | 11–2854 | 15 [12] | [11] 14 | rhsB | rhs element protein RhsB |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 0 (0.000) | 72 (1.570) | 43/244 | 0.1 | 100% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 0 (0.000) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 0 (0.000) | 44 (0.960) | 34/244 | 0.3 | 100% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 0 (0.000) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 65 (1.290) | 48/268 | 0.1 | 100% | intergenic (+253/‑33) | ychE/insH21 | putative inner membrane protein/IS5 transposase and trans‑activator |
| ? | NC_000913 | 1300698 = | 0 (0.000) | intergenic (+151/‑484) | insH21/oppA | IS5 transposase and trans‑activator/oligopeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | 3363001 = | 90 (1.730) | 84 (1.630) | 50/274 | 0.1 | 65.0% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 1 (0.020) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 36 (0.690) | 28/276 | 0.7 | 100% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 0 (0.000) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 4542690 | 39 (0.750) | 13 (0.270) | 12/258 | 2.4 | 24.7% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 43 (0.890) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||