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 | 77,309 | A→G | intergenic (‑10/‑58) | sgrR ← / → sgrS | DNA‑binding transcriptional dual regulator SgrR/small regulatory RNA SgrS |
| RA | 79,213 | C→T | G81S (GGC→AGC) | leuD ← | 3‑isopropylmalate dehydratase subunit LeuD |
| RA | 139,397 | G→A | A610V (GCA→GTA) | gcd ← | quinoprotein glucose dehydrogenase |
| RA | 188,435 | C→T | L72L (CTG→CTA) | glnD ← | PII uridylyltransferase/uridylyl removing enzyme |
| RA | 204,549 | A→G | G19G (GGA→GGG) | rnhB → | RNase HII |
| RA | 208,530 | T→C | R1135R (CGT→CGC) | dnaE → | DNA polymerase III subunit alpha |
| RA | 209,910 | C→T | P78S (CCG→TCG) | ldcC → | lysine decarboxylase 2 |
| RA | 212,147 | G→A | A91T (GCG→ACG) | yaeR → | VOC domain‑containing protein YaeR |
| RA | 224,908 | G→A | noncoding (1138/1542 nt) | rrsH → | 16S ribosomal RNA |
| RA | 229,044 | (T)8→7 | intergenic (+40/‑123) | aspU → / → dkgB | tRNA‑Asp/methylglyoxal reductase DkgB |
| RA | 247,805 | C→T | P57S (CCA→TCA) | rayT → | REP‑associated tyrosine transposase |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 259,478 | T→C | Y208C (TAT→TGT) | phoE ← | outer membrane porin PhoE |
| RA | 283,415 | G→A | G72D (GGC→GAC) | yagF → | CP4‑6 prophage; D‑xylonate dehydratase |
| RA | 297,695 | A→G | S33P (TCC→CCC) | yagP ← | putative LysR family substrate binding domain‑containing protein YagP |
| RA | 318,945 | C→T | A353T (GCT→ACT) | rclA ← | putative pyridine nucleotide‑disulfide oxidoreductase RclA |
| RA | 349,169 | C→T | A163V (GCG→GTG) | prpB → | 2‑methylisocitrate lyase |
| RA | 360,219 | C→T | A76A (GCC→GCT) | cynX → | cyanate transporter |
| RA | 399,101 | A→G | L78P (CTG→CCG) | yaiY ← | inner membrane protein |
| RA | 423,975 | A→G | G486G (GGA→GGG) | malZ → | maltodextrin glucosidase |
| RA | 426,273 | T→C | V46A (GTT→GCT) | tgt → | tRNA‑guanine transglycosylase |
| RA | 458,096 | C→T | P224L (CCG→CTG) | clpX → | ATP‑dependent Clp protease ATP‑binding subunit ClpX |
| RA | 484,656 | T→C | T322A (ACC→GCC) | acrA ← | multidrug efflux pump membrane fusion lipoprotein AcrA |
| RA | 525,148 | A→G | T630A (ACC→GCC) | rhsD → | protein RhsD |
| RA | 527,577 | T→C | intergenic (+36/‑4) | rhsD → / → ybbC | protein RhsD/PF15631 family protein YbbC |
| RA | 618,377 | (A)7→6 | coding (124/1134 nt) | fepE → | polysaccharide co‑polymerase family protein FepE |
| RA | 622,460 | T→C | V54A (GTG→GCG) | entS → | enterobactin exporter EntS |
| RA | 625,033 | A→G | D50G (GAC→GGC) | entC → | isochorismate synthase EntC |
| RA | 811,946 | T→C | V142A (GTG→GCG) | bioC → | malonyl‑acyl carrier protein methyltransferase |
| RA | 829,356 | G→A | T206M (ACG→ATG) | ybhG ← | HlyD_D23 family protein YbhG |
| RA | 831,276 | T→C | R135R (CGT→CGC) | rhlE → | ATP‑dependent RNA helicase RhlE |
| RA | 877,527 | G→A | P170L (CCG→CTG) | rimO ← | ribosomal protein S12 methylthiotransferase RimO |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 890,116 | (G)5→6 | coding (28/378 nt) | ybjM → | putative inner membrane protein |
| RA | 899,761 | C→G | intergenic (+116/+83) | rlmC → / ← artJ | 23S rRNA m(5)U747 methyltransferase/L‑arginine ABC transporter periplasmic binding protein |
| RA | 913,218 | C→T | A199A (GCG→GCA) | hcp ← | protein S‑nitrosylase |
| RA | 932,339 | (A)8→6 | intergenic (‑289/‑255) | trxB ← / → lrp | thioredoxin reductase/DNA‑binding transcriptional dual regulator Lrp |
| RA | 943,075 | T→C | V706A (GTT→GCT) | dmsA → | dimethyl sulfoxide reductase subunit A |
| RA | 964,379 | G→A | L20L (TTG→TTA) | ycaI → | conserved inner membrane protein YcaI |
| RA | 968,960 | G→A | G199S (GGT→AGT) | lpxK → | tetraacyldisaccharide 4'‑kinase |
| RA | 970,213 | G→A | A275A (GCG→GCA) | ycaQ → | winged helix DNA‑binding domain‑containing protein YcaQ |
| RA | 1,000,872 | A→G | T553A (ACG→GCG) | elfC → | putative fimbrial usher protein ElfC |
| RA | 1,010,898 | C→T | A312V (GCC→GTC) | uup → | ATP‑binding protein with possible role in replication |
| RA | 1,021,283 | A→G | Y49C (TAT→TGT) | sxy → | transcriptional coactivator for CRP |
| RA | 1,038,621 | C→T | I294I (ATC→ATT) | appC → | cytochrome bd‑II ubiquinol oxidase subunit I |
| RA | 1,064,681 | G→A | A216T (GCT→ACT) | yccE → | uncharacterized protein YccE |
| RA | 1,076,780 | C→T | T701T (ACG→ACA) | putA ← | fused DNA‑binding transcriptional repressor/proline dehydrogenase/1‑pyrroline‑5‑carboxylate dehydrogenase PutA |
| RA | 1,077,020 | C→T | G621G (GGG→GGA) | putA ← | fused DNA‑binding transcriptional repressor/proline dehydrogenase/1‑pyrroline‑5‑carboxylate dehydrogenase PutA |
| RA | 1,143,140 | T→C | T410A (ACT→GCT) | rne ← | ribonuclease E |
| RA | 1,168,692 | T→C | E47E (GAA→GAG) | comR ← | DNA‑binding transcriptional repressor ComR |
| RA | 1,176,424 | G→A | G333D (GGC→GAC) | lolC → | lipoprotein release complex ‑ inner membrane subunit |
| RA | 1,190,871 | G→A | D372D (GAC→GAT) | purB ← | adenylosuccinate lyase |
| RA | 1,196,220 | C→T | H366H (CAC→CAT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,232 | C→T | T370T (ACC→ACT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,245 | T→C | L375M (TTA→CTG) | icd → | isocitrate dehydrogenase |
| RA | 1,196,247 | A→G | L375M (TTA→CTG) | icd → | isocitrate dehydrogenase |
| RA | 1,220,971 | G→A | pseudogene (1371/2648 nt) | ycgH → | putative transporter component, N‑terminal fragment |
| RA | 1,250,624 | G→A | A72V (GCC→GTC) | dhaK ← | dihydroxyacetone kinase subunit K |
| RA | 1,282,908 | T→C | G1015G (GGT→GGC) | narG → | nitrate reductase A subunit alpha |
| RA | 1,317,060 | A→G | S55P (TCC→CCC) | trpA ← | tryptophan synthase subunit alpha |
| RA | 1,322,274 | G→A | P225S (CCG→TCG) | trpE ← | anthranilate synthase subunit TrpE |
| RA | 1,367,267 | T→C | T216A (ACA→GCA) | pspF ← | DNA‑binding transcriptional dual regulator PspF |
| RA | 1,370,044 | (T)9→8 | intergenic (+41/‑172) | pspE → / → ycjM | thiosulfate sulfurtransferase PspE/glucosylglycerate phosphorylase |
| RA | 1,432,780 | T→C | F124L (TTC→CTC) | tfaR → | Rac prophage; putative tail fiber assembly protein TfaR |
| RA | 1,444,488 | A→G | M480V (ATG→GTG) | ydbH → | PF11739 family protein YdbH |
| RA | 1,501,651 | A→G | K30K (AAA→AAG) | tehB → | tellurite methyltransferase |
| RA | 1,541,351 | C→T | E414K (GAA→AAA) | narZ ← | nitrate reductase Z subunit alpha |
| RA | 1,543,638 | T→C | A141A (GCA→GCG) | narU ← | nitrate/nitrite transporter NarU |
| RA | 1,545,403 | T→C | P104P (CCA→CCG) | yddK ← | leucine‑rich repeat domain‑containing protein YddK |
| RA | 1,558,997 | G→A | D7D (GAC→GAT) | ddpD ← | putative D,D‑dipeptide ABC transporter ATP‑binding subunit DdpD |
| RA | 1,564,014 | C→T | G574S (GGC→AGC) | dosP ← | oxygen‑sensing c‑di‑GMP phosphodiesterase DosP |
| RA | 1,575,914 | T→C | Y569C (TAC→TGC) | yddB ← | putative TonB‑dependent receptor |
| RA | 1,576,542 | T→C | T360A (ACA→GCA) | yddB ← | putative TonB‑dependent receptor |
| RA | 1,586,334 | A→G | G51G (GGT→GGC) | ydeP ← | putative oxidoreductase YdeP |
| RA | 1,594,132 | (C)8→9 | pseudogene (3955/5422 nt) | yneO ← | AIDA‑I family autotransporter YneO |
| RA | 1,607,789 | A→G | E148E (GAA→GAG) | tam → | trans‑aconitate 2‑methyltransferase |
| RA | 1,614,700 | T→C | T2A (ACC→GCC) | sad ← | NAD(+)‑dependent succinate semialdehyde dehydrogenase |
| RA | 1,634,642 | C→T | G82S (GGC→AGC) | tfaQ ← | Qin prophage; putative tail fiber assembly protein TfaQ |
| RA | 1,635,293 | G→A | T185T (ACC→ACT) | ydfN ← | Qin prophage; putative side tail fiber assembly protein |
| RA | 1,635,296 | T→G | G184G (GGA→GGC) | ydfN ← | Qin prophage; putative side tail fiber assembly protein |
| RA | 1,635,322 | C→T | E176K (GAA→AAA) | ydfN ← | Qin prophage; putative side tail fiber assembly protein |
| RA | 1,635,335 | C→T | T171T (ACG→ACA) | ydfN ← | Qin prophage; putative side tail fiber assembly protein |
| RA | 1,635,362 | G→A | H162H (CAC→CAT) | ydfN ← | Qin prophage; putative side tail fiber assembly protein |
| RA | 1,635,392 | T→C | L152L (TTA→TTG) | ydfN ← | Qin prophage; putative side tail fiber assembly protein |
| RA | 1,635,413 | G→A | P145P (CCC→CCT) | ydfN ← | Qin prophage; putative side tail fiber assembly protein |
| RA | 1,635,416 | C→T | K144K (AAG→AAA) | ydfN ← | Qin prophage; putative side tail fiber assembly protein |
| RA | 1,673,662 | A→G | intergenic (‑161/‑251) | mdtJ ← / → tqsA | multidrug/spermidine efflux pump membrane subunit MdtJ/autoinducer 2 exporter |
| RA | 1,683,057 | (C)6→7 | coding (176/1302 nt) | rstB → | sensory histidine kinase RstB |
| RA | 1,685,542 | (C)6→5 | coding (1047/1404 nt) | fumC ← | fumarase C |
| RA | 1,692,675 | T→C | V59V (GTA→GTG) | uidC ← | outer membrane porin family protein |
| RA | 1,698,408 | G→A | A258V (GCA→GTA) | malI ← | DNA‑binding transcriptional repressor MalI |
| RA | 1,714,326 | (T)9→8 | intergenic (+55/‑51) | dtpA → / → gstA | dipeptide/tripeptide:H(+) symporter DtpA/glutathione S‑transferase GstA |
| RA | 1,731,858 | A→G | E924E (GAA→GAG) | lhr → | putative ATP‑dependent helicase Lhr |
| RA | 1,745,702 | G→A | G142G (GGC→GGT) | ydhQ ← | adhesin‑like autotransporter YdhQ |
| RA | 1,756,910 | (A)6→5 | coding (1213/1413 nt) | pykF → | pyruvate kinase I |
| RA | 1,759,081 | Δ1 bp | coding (210/417 nt) | sufE ← | sulfur acceptor for SufS cysteine desulfurase |
| RA | 1,764,602 | A→G | intergenic (‑216/+111) | sufA ← / ← rydB | iron‑sulfur cluster insertion protein SufA/small regulatory RNA RydB |
| RA | 1,774,849 | T→C | L55P (CTC→CCC) | aroD → | 3‑dehydroquinate dehydratase |
| RA | 1,792,581 | G→A | R51C (CGT→TGT) | nlpC ← | NlpC/P60 family lipoprotein NlpC |
| RA | 1,793,378 | G→A | Q61* (CAA→TAA) | btuD ← | vitamin B12 ABC transporter ATP binding subunit |
| RA | 1,808,608 | G→A | Q271Q (CAG→CAA) | yniA → | putative kinase YniA |
| RA | 1,816,136 | C→T | intergenic (+8/+250) | katE → / ← chbG | catalase II/chitin disaccharide deacetylase |
| RA | 1,829,911 | G→A | G285G (GGC→GGT) | astA ← | arginine N‑succinyltransferase |
| RA | 1,831,404 | (C)5→6 | coding (579/1221 nt) | astC ← | succinylornithine transaminase |
| RA | 1,840,945 | T→C | G153G (GGA→GGG) | ynjF ← | putative phosphatidyl transferase, inner membrane protein |
| RA | 1,863,500 | A→G | T244A (ACC→GCC) | gapA → | glyceraldehyde‑3‑phosphate dehydrogenase A |
| RA | 1,873,384 | A→G | K448K (AAA→AAG) | dgcJ → | putative diguanylate cyclase DgcJ |
| RA | 1,874,642 | G→A | W97* (TGG→TGA) | yeaL → | conserved inner membrane protein YeaL |
| JC JC | 1,879,829 | Δ1 bp :: IS186 (–) +6 bp :: Δ1 bp | coding (115‑120/360 nt) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| RA | 1,894,576 | C→A | A52A (GCG→GCT) | yoaH ← | UFP0181 family protein YoaH |
| RA | 1,914,686 | A→G | V44A (GTA→GCA) | prc ← | tail‑specific protease |
| RA | 1,915,022 | T→C | A171A (GCA→GCG) | proQ ← | RNA chaperone ProQ |
| RA | 1,924,272 | A→G | V107A (GTC→GCC) | yebZ ← | putative inner membrane protein |
| MC JC | 1,978,503 | Δ776 bp | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 1,982,897 | A→G | V215A (GTA→GCA) | araH ← | arabinose ABC transporter membrane subunit |
| RA | 2,034,114 | G→A | pseudogene (64/1193 nt) | yedS → | putative outer membrane protein YedS, N‑terminal fragment |
| RA | 2,037,021 | T→C | T378A (ACC→GCC) | hprS ← | sensory histidine kinase HprS |
| RA | 2,065,747 | (C)6→5 | coding (18/546 nt) | cobU ← | cobinamide‑P guanylyltransferase/cobinamide kinase |
| RA | 2,074,704 | C→T | intergenic (+46/‑75) | flu → / → yeeR | CP4‑44 prophage; self recognizing antigen 43 (Ag43) autotransporter/CP4‑44 prophage; inner membrane protein YeeR |
| JC | 2,090,116 | (C)5→8 | intergenic (+70/‑76) | hisL → / → hisG | his operon leader peptide/ATP phosphoribosyltransferase |
| RA | 2,097,780 | T→C | G174G (GGA→GGG) | wzzB ← | regulator of length of O‑antigen component of lipopolysaccharide chains |
| RA | 2,136,972 | T→C | D91G (GAC→GGC) | wza ← | outer membrane polysaccharide export protein Wza |
| RA | 2,158,475 | T→C | R30R (CGT→CGC) | mdtC → | multidrug efflux pump RND permease subunit MdtC |
| RA | 2,165,693 | C→T | P9L (CCG→CTG) | yegQ → | putative peptidase YegQ |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,197,957 | C→T | intergenic (+659/‑2322) | yehF → / → yehI | putative protein YehF/DUF4132 domain‑containing protein YehI |
| RA | 2,225,640 | (C)5→6 | intergenic (‑9/‑161) | yohC ← / → yohD | putative inner membrane protein/DedA family protein YohD |
| RA | 2,267,921 | (A)5→4 | coding (93/987 nt) | yeiR → | zinc‑binding GTPase YeiR |
| RA | 2,296,397 | C→A | A210S (GCG→TCG) | ccmB ← | heme trafficking system membrane protein CcmB |
| RA | 2,302,512 | C→T | C81Y (TGC→TAC) | napA ← | periplasmic nitrate reductase subunit NapA |
| RA | 2,313,304 | G→A | intergenic (+128/‑184) | micF → / → rcsD | small regulatory RNA MicF/RcsD phosphotransferase |
| RA | 2,317,764 | T→C | S705G (AGT→GGT) | rcsC ← | sensory histidine kinase RcsC |
| RA | 2,377,318 | G→A | A92V (GCG→GTG) | menH ← | 2‑succinyl‑6‑hydroxy‑2, 4‑cyclohexadiene‑1‑carboxylate synthase |
| RA | 2,379,609 | A→G | V345V (GTT→GTC) | menF ← | isochorismate synthase MenF |
| RA | 2,441,361 | G→A | A82V (GCA→GTA) | fabB ← | beta‑ketoacyl‑[acyl carrier protein] synthase I |
| RA | 2,446,579 | T→C | T299A (ACC→GCC) | aroC ← | chorismate synthase |
| RA | 2,462,889 | (C)9→8 | intergenic (+243/‑123) | fadL → / → yfdF | long‑chain fatty acid outer membrane channel/bacteriophage T2 receptor/protein YfdF |
| RA | 2,464,775 | A→G | L78P (CTT→CCT) | mlaA ← | intermembrane phospholipid transport system ‑ outer membrane lipoprotein MlaA |
| RA | 2,527,823 | T→C | V293A (GTG→GCG) | yfeH → | putative solute:Na(+) symporter |
| RA | 2,577,589 | A→G | C263C (TGT→TGC) | maeB ← | malate dehydrogenase |
| RA | 2,586,590 | T→C | V287A (GTC→GCC) | narQ → | sensory histidine kinase NarQ |
| RA | 2,591,557 | T→C | L104P (CTG→CCG) | yffB → | putative reductase YffB |
| RA | 2,612,556 | A→G | P219P (CCA→CCG) | hyfR → | DNA‑binding transcriptional activator HyfR |
| RA | 2,646,583 | (G)6→7 | coding (743/2313 nt) | pbpC ← | peptidoglycan glycosyltransferase PbpC |
| RA | 2,649,354 | G→A | N978N (AAC→AAT) | yfhM ← | alpha2‑macroglobulin |
| RA | 2,679,678 | G→A | A1023V (GCC→GTC) | yphG ← | DUF5107 domain‑containing protein YphG |
| RA | 2,680,184 | C→T | L854L (CTG→CTA) | yphG ← | DUF5107 domain‑containing protein YphG |
| RA | 2,681,870 | T→C | G292G (GGA→GGG) | yphG ← | DUF5107 domain‑containing protein YphG |
| RA | 2,720,083 | T→C | V44A (GTA→GCA) | patZ → | peptidyl‑lysine acetyltransferase |
| RA | 2,734,543 | (C)8→10 | coding (492/732 nt) | pgeF ← | polyphenol oxidase YfiH |
| RA | 2,759,743 | (T)6→7 | coding (759/1410 nt) | yfjI → | CP4‑57 prophage; protein YfjI |
| RA | 2,782,600 | T→C | T43A (ACT→GCT) | ypjA ← | adhesin‑like autotransporter YpjA |
| RA | 2,801,601 | T→C | V85A (GTC→GCC) | nrdE → | ribonucleoside‑diphosphate reductase 2 subunit alpha |
| RA | 2,811,134 | A→G | H122R (CAC→CGC) | mprA → | DNA‑binding transcriptional repressor MprA |
| RA | 2,812,983 | C→T | S123L (TCG→TTG) | emrB → | multidrug efflux pump membrane subunit EmrB |
| RA | 2,821,292 | A→G | G240G (GGT→GGC) | alaS ← | alanine‑‑tRNA ligase/DNA‑binding transcriptional repressor |
| RA | 2,821,424 | G→C | G196G (GGC→GGG) | alaS ← | alanine‑‑tRNA ligase/DNA‑binding transcriptional repressor |
| RA | 2,821,923 | A→G | V30A (GTA→GCA) | alaS ← | alanine‑‑tRNA ligase/DNA‑binding transcriptional repressor |
| RA | 2,841,831 | T→C | V281A (GTA→GCA) | ascB → | 6‑phospho‑beta‑glucosidase AscB |
| RA | 2,842,550 | T→C | intergenic (+136/+23) | ascB → / ← hycI | 6‑phospho‑beta‑glucosidase AscB/hydrogenase 3 maturation protease |
| MC JC | 2,857,096 | Δ2,538 bp | coding (4‑2541/2562 nt) | mutS → | DNA mismatch repair protein MutS |
| RA | 2,900,306 | (A)9→8 | intergenic (‑33/‑286) | ygcW ← / → yqcE | putative deoxygluconate dehydrogenase/putative transport protein YqcE |
| RA | 2,909,883 | G→A | intergenic (‑217/+11) | pyrG ← / ← mazG | CTP synthetase/nucleoside triphosphate pyrophosphohydrolase |
| RA | 2,910,815 | T→C | T93A (ACA→GCA) | mazF ← | endoribonuclease toxin MazF |
| RA | 2,947,755 | T→C | intergenic (+72/+2) | metV → / ← amiC | tRNA‑Met/N‑acetylmuramoyl‑L‑alanine amidase C |
| RA | 2,949,993 | (T)5→6 | coding (752/1332 nt) | argA → | N‑acetylglutamate synthase |
| RA | 2,964,718 | G→A | C146C (TGC→TGT) | thyA ← | thymidylate synthase |
| RA | 2,965,681 | A→G | R119R (CGT→CGC) | lgt ← | phosphatidylglycerol‑‑prolipoprotein diacylglyceryl transferase |
| RA | 2,978,815 | A→G | W29R (TGG→CGG) | lysA ← | diaminopimelate decarboxylase |
| RA | 3,010,338 | G→A | R104H (CGC→CAC) | hyuA → | phenylhydantoinase |
| RA | 3,059,012 | A→T | I105N (ATC→AAC) | rpiA ← | ribose‑5‑phosphate isomerase A |
| RA | 3,068,157 | T→C | intergenic (‑77/+16) | yggE ← / ← argO | uncharacterized protein YggE/L‑arginine exporter |
| RA | 3,093,479 | T→C | P181P (CCT→CCC) | yqgE → | DUF179 domain‑containing protein YqgE |
| RA | 3,101,039 | (C)7→8 | coding (585/720 nt) | yggN ← | putative EcfF |
| RA | 3,126,083 | T→C | Y147C (TAC→TGC) | glcE ← | glycolate dehydrogenase, putative FAD‑binding subunit |
| RA | 3,146,246 | T→C | T6A (ACC→GCC) | hybO ← | hydrogenase 2 small subunit |
| RA | 3,163,303 | T→C | D60G (GAC→GGC) | plsC ← | 1‑acylglycerol‑3‑phosphate O‑acyltransferase |
| RA | 3,231,336 | A→T | intergenic (+97/‑329) | ygjK → / → fadH | glycoside hydrolase/2,4‑dienoyl‑CoA reductase |
| RA | 3,231,367 | A→G | intergenic (+128/‑298) | ygjK → / → fadH | glycoside hydrolase/2,4‑dienoyl‑CoA reductase |
| RA | 3,231,411 | G→A | intergenic (+172/‑254) | ygjK → / → fadH | glycoside hydrolase/2,4‑dienoyl‑CoA reductase |
| RA | 3,231,417 | A→G | intergenic (+178/‑248) | ygjK → / → fadH | glycoside hydrolase/2,4‑dienoyl‑CoA reductase |
| RA | 3,231,425 | C→T | intergenic (+186/‑240) | ygjK → / → fadH | glycoside hydrolase/2,4‑dienoyl‑CoA reductase |
| RA | 3,250,696 | T→C | G45G (GGT→GGC) | yqjF → | DoxX family protein |
| RA | 3,251,988 | G→A | G322E (GGA→GAA) | yqjG → | glutathionyl‑hydroquinone reductase YqjG |
| RA | 3,253,810 | (C)5→4 | coding (405/897 nt) | yhaJ ← | DNA‑binding transcriptional activator YhaJ |
| RA | 3,294,876 | T→C | S493P (TCT→CCT) | lpoA → | outer membrane lipoprotein ‑ activator of MrcA activity |
| JC | 3,304,813 | (C)7→10 | coding (1005/1245 nt) | mtr ← | tryptophan:H(+) symporter Mtr |
| RA | 3,337,788 | G→A | A35V (GCG→GTG) | mlaC ← | intermembrane phospholipid transport system ‑ periplasmic binding protein |
| RA | 3,341,464 | (A)5→6 | coding (199/987 nt) | kdsD → | D‑arabinose 5‑phosphate isomerase KdsD |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,388,726 | A→G | V134A (GTT→GCT) | aaeA ← | aromatic carboxylic acid efflux pump membrane fusion protein |
| RA | 3,393,438 | G→A | R941C (CGT→TGT) | yhdP ← | AsmA2 domain‑containing protein |
| RA | 3,465,949 | G→A | G136E (GGG→GAG) | gspO → | Type II secretion system prepilin peptidase |
| RA | 3,510,617 | G→A | G120G (GGC→GGT) | yhfX ← | putative PLP‑binding protein YhfX |
| RA | 3,538,681 | T→C | F433L (TTC→CTC) | yhgF → | putative RNA‑binding protein YhgF |
| RA | 3,548,667 | G→A | G468G (GGC→GGT) | malQ ← | 4‑alpha‑glucanotransferase |
| RA | 3,550,853 | G→A | R541C (CGC→TGC) | malP ← | maltodextrin phosphorylase |
| RA | 3,553,728 | T→C | V215A (GTT→GCT) | malT → | DNA‑binding transcriptional activator MalT |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,584,131 | T→A | L152Q (CTG→CAG) | insB‑6 → | IS1 protein InsB |
| RA | 3,588,404 | A→G | G259G (GGT→GGC) | ugpC ← | sn‑glycerol 3‑phosphate ABC transporter ATP binding subunit |
| RA | 3,606,249 | T→C | L167L (TTG→CTG) | yhhN → | conserved inner membrane enzyme YhhN |
| RA | 3,617,710 | (C)5→6 | coding (696/765 nt) | nikD → | Ni(2(+)) ABC transporter ATP binding subunit NikD |
| RA | 3,619,221 | T→C | G10G (GGT→GGC) | rhsB → | rhs element protein RhsB |
| RA | 3,619,251 | T→C | V20V (GTT→GTC) | rhsB → | rhs element protein RhsB |
| RA | 3,619,272 | T→C | R27R (CGT→CGC) | rhsB → | rhs element protein RhsB |
| RA | 3,619,275 | T→C | I28I (ATT→ATC) | rhsB → | rhs element protein RhsB |
| RA | 3,638,467 | C→T | Q276* (CAG→TAG) | pitA → | metal phosphate:H(+) symporter PitA |
| RA | 3,643,621 | T→C | H521R (CAC→CGC) | prlC ← | oligopeptidase A |
| RA | 3,645,505 | A→G | T41A (ACC→GCC) | rlmJ → | 23S rRNA m(6)A2030 methyltransferase |
| RA | 3,679,422 | T→C | S2P (TCC→CCC) | kdgK → | 2‑dehydro‑3‑deoxygluconokinase |
| RA | 3,711,727 | G→A | A94V (GCG→GTG) | yhjX ← | putative pyruvate transporter |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,817,019 | T→C | V115A (GTG→GCG) | yicC → | UPF0701 family protein YicC |
| RA | 3,820,757 | T→C | K138K (AAA→AAG) | ligB ← | DNA ligase B |
| RA | 3,856,624 | (A)6→7 | coding (210/450 nt) | yidI → | putative inner membrane protein |
| RA | 3,860,630 | (C)5→4 | coding (348/894 nt) | yidL → | putative DNA‑binding transcriptional regulator YidL |
| RA | 3,873,084 | T→C | S177G (AGC→GGC) | dgoA ← | 2‑dehydro‑3‑deoxy‑6‑phosphogalactonate aldolase |
| RA | 3,877,329 | G→C | A46G (GCC→GGC) | yidB ← | conserved protein YidB |
| RA | 3,880,097 | G→A | S8F (TCC→TTC) | gyrB ← | DNA gyrase subunit B |
| RA | 3,881,817 | T→C | T169A (ACC→GCC) | dnaN ← | beta sliding clamp |
| RA | 3,886,716 | (A)6→5 | coding (1641/1647 nt) | yidC → | membrane protein insertase YidC |
| RA | 3,992,297 | C→T | A382V (GCG→GTG) | cyaA → | adenylate cyclase |
| RA | 4,026,219 | A→G | N411S (AAC→AGC) | ubiD → | 3‑octaprenyl‑4‑hydroxybenzoate decarboxylase |
| RA | 4,035,253 | A→G | intergenic (+100/‑278) | hemG → / → rrsA | protoporphyrinogen oxidase/16S ribosomal RNA |
| RA | 4,065,906 | A→G | V430A (GTA→GCA) | yihP ← | putative 2,3‑dihydroxypropane‑1‑sulfonate export protein |
| RA | 4,079,837 | C→T | D29D (GAC→GAT) | yiiF → | protein YiiF |
| RA | 4,085,268 | A→G | G185G (GGT→GGC) | fdoG ← | formate dehydrogenase O subunit alpha |
| RA | 4,093,535 | G→A | G246G (GGC→GGT) | rhaD ← | rhamnulose‑1‑phosphate aldolase |
| RA | 4,094,489 | G→A | intergenic (‑217/+234) | rhaD ← / ← rhaA | rhamnulose‑1‑phosphate aldolase/L‑rhamnose isomerase |
| RA | 4,168,472 | G→A | intergenic (+25/‑169) | gltT → / → rrlB | tRNA‑Glu/23S ribosomal RNA |
| RA | 4,168,475 | 2 bp→TG | intergenic (+28/‑165) | gltT → / → rrlB | tRNA‑Glu/23S ribosomal RNA |
| RA | 4,194,668 | A→G | S478P (TCG→CCG) | thiC ← | phosphomethylpyrimidine synthase |
| RA | 4,222,704 | A→G | intergenic (‑217/+100) | arpA ← / ← iclR | regulator of acetyl CoA synthetase/DNA‑binding transcriptional repressor IclR |
| RA | 4,245,645 | A→G | S259P (TCC→CCC) | malE ← | maltose ABC transporter periplasmic binding protein |
| RA | 4,267,511 | A→G | N133S (AAC→AGC) | tyrB → | tyrosine aminotransferase |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,309,020 | C→T | L150L (CTG→CTA) | alsC ← | D‑allose ABC transporter membrane subunit |
| RA | 4,319,195 | C→T | E138K (GAA→AAA) | phnJ ← | carbon‑phosphorus lyase core complex subunit PhnJ |
| RA | 4,341,808 | C→T | intergenic (‑180/‑103) | melR ← / → melA | DNA‑binding transcriptional dual regulator MelR/alpha‑galactosidase |
| RA | 4,386,559 | C→T | D938N (GAT→AAT) | mscM ← | miniconductance mechanosensitive channel MscM |
| RA | 4,445,549 | A→G | T480A (ACC→GCC) | tamB → | translocation and assembly module subunit TamB |
| RA | 4,486,192 | G→A | intergenic (‑241/‑26) | pepA ← / → lptF | aminopeptidase A/I/lipopolysaccharide transport system protein LptF |
| RA | 4,494,288 | C→A | C40F (TGC→TTC) | idnD ← | L‑idonate 5‑dehydrogenase |
| RA | 4,496,087 | G→A | C41C (TGC→TGT) | ahr ← | aldehyde reductase, NADPH‑dependent |
| RA | 4,536,190 | T→C | intergenic (+159/+424) | yjhR → / ← nanS | KpLE2 phage‑like element; PLD‑like domain‑containing protein YjhR/N‑acetyl‑9‑O‑acetylneuraminate esterase |
| RA | 4,606,095 | Δ1 bp | noncoding (71/87 nt) | leuV ← | tRNA‑Leu |
| JC | 4,606,215 | (G)8→11 | noncoding (72/87 nt) | leuP ← | tRNA‑Leu |
| RA | 4,631,477 | T→C | F249L (TTT→CTT) | slt → | soluble lytic murein transglycosylase |
| RA | 4,633,457 | C→T | G97S (GGC→AGC) | yjjX ← | ITPase/XTPase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 1196260 | 1211438 | 15179 | 139 [137] | [133] 146 | [icd]–[icdC] | [icd],ymfD,ymfE,lit,intE,xisE,ymfH,ymfI,ymfJ,ymfK,ymfT,ymfL,ymfM,oweE,ymfN,aaaE,ymfR,beeE,jayE,ymfQ,ycfK,tfaP,tfaE,stfE,pinE,mcrA,[icdC] |
| * | * | ÷ | NC_000913 | 3423755–3424545 | 3424545 | 1–791 | 143 [128] | [136] 147 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 536 (1.230) | 143/268 | 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 = | 933 (2.070) | 937 (2.100) | 143/274 | 0.1 | 66.6% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 15 (0.030) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 488 (1.080) | 126/276 | 0.3 | 94.8% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 27 (0.060) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||