mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.29.0 revision 8f9c342918e4
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| RA | 10,463 | G→A | P11L (CCG→CTG) | satP ← | succinate‑acetate transporter |
| RA | 17,348 | A→G | intergenic (‑388/‑141) | mokC ← / → nhaA | regulatory protein for HokC, overlaps CDS of hokC/sodium‑proton antiporter |
| RA | 113,104 | A→G | V39A (GTG→GCG) | coaE ← | dephospho‑CoA kinase |
| RA | 121,578 | (T)7→6 | intergenic (‑27/‑514) | aroP ← / → pdhR | aromatic amino acid transporter/pyruvate dehydrogenase complex repressor; autorepressor |
| RA | 125,921 | C→T | S76F (TCC→TTC) | aceF → | pyruvate dehydrogenase, dihydrolipoyltransacetylase component E2 |
| RA | 198,049 | C→T | A41V (GCG→GTG) | bamA → | BamABCDE complex OM biogenesis outer membrane pore‑forming assembly factor |
| RA | 218,942 | A→G | V218A (GTT→GCT) | tsaA ← | tRNA‑Thr(GGU) m(6)t(6)A37 methyltransferase, SAM‑dependent |
| RA | 240,865 | G→A | A813A (GCC→GCT) | fadE ← | acyl coenzyme A dehydrogenase |
| MC JC | 257,908 | Δ776 bp | [crl] | [crl] | |
| RA | 264,465 | C→A | E90* (GAG→TAG) | ykfG ← | CP4‑6 prophage; RadC‑like JAB domain protein |
| RA | 282,993 | C→T | A239V (GCC→GTC) | yagE → | 2‑keto‑3‑deoxy gluconate (KDG) aldolase; CP4‑6 prophage |
| RA | 287,616 | G→A | L276L (CTG→CTA) | yagH → | CP4‑6 prophage; putative xylosidase/arabinosidase |
| RA | 297,699 | A→G | pseudogene (21/339 nt) | yagP ← | pseudogene, LysR family, fragment;putative regulator; Not classified; putative transcriptional regulator LYSR‑type |
| RA | 308,054 | (C)7→8 | coding (1279/2526 nt) | ecpC ← | ECP production outer membrane protein |
| RA | 310,993 | A→G | V115A (GTA→GCA) | ecpR ← | putative transcriptional regulator for the ecp operon |
| RA | 329,853 | A→G | T131A (ACG→GCG) | betT → | choline transporter of high affinity |
| RA | 335,321 | A→G | A14A (GCA→GCG) | yahD → | ankyrin repeat protein |
| RA | 339,992 | Δ1 bp | intergenic (+249/‑173) | yahG → / → yahI | DUF1116 family protein/carbamate kinase‑like protein |
| RA | 340,028 | T→C | intergenic (+285/‑137) | yahG → / → yahI | DUF1116 family protein/carbamate kinase‑like protein |
| RA | 340,034 | T→C | intergenic (+291/‑131) | yahG → / → yahI | DUF1116 family protein/carbamate kinase‑like protein |
| RA | 340,051 | A→G | intergenic (+308/‑114) | yahG → / → yahI | DUF1116 family protein/carbamate kinase‑like protein |
| RA | 349,456 | A→G | T259A (ACG→GCG) | prpB → | 2‑methylisocitrate lyase |
| RA | 414,867 | C→T | W296* (TGG→TAG) | sbcC ← | exonuclease, dsDNA, ATP‑dependent |
| RA | 419,364 | T→C | intergenic (+180/‑227) | phoR → / → brnQ | sensory histidine kinase in two‑component regulatory system with PhoB/branched‑chain amino acid transport system 2 carrier protein; LIV‑II transport system for Ile, Leu, and Val |
| RA | 468,271 | (T)8→7 | intergenic (+41/‑112) | cof → / → ybaO | thiamine pyrimidine pyrophosphate hydrolase; HMP‑PP phosphatase/putative DNA‑binding transcriptional regulator |
| RA | 481,469 | A→G | S979P (TCG→CCG) | acrB ← | multidrug efflux system protein |
| RA | 521,921 | A→G | V502V (GTA→GTG) | ybbP → | putative ABC transporter permease |
| RA | 576,168 | T→C | pseudogene (658/1040 nt) | nmpC ← | DLP12 prophage; truncated outer membrane porin (pseudogene);IS, phage, Tn; Phage or Prophage Related; outer membrane porin protein; locus of qsr prophage |
| RA | 577,085 | G→A | intergenic (‑260/‑313) | nmpC ← / → essD | DLP12 prophage; truncated outer membrane porin (pseudogene);IS, phage, Tn; Phage or Prophage Related; outer membrane porin protein; locus of qsr prophage/DLP12 prophage; putative phage lysis protein |
| RA | 588,485 | G→A | R824C (CGC→TGC) | nfrA ← | bacteriophage N4 receptor, outer membrane subunit |
| RA | 650,431 | C→T | V20V (GTG→GTA) | citE ← | citrate lyase, citryl‑ACP lyase (beta) subunit |
| RA | 693,599 | T→C | T453A (ACA→GCA) | miaB ← | tRNA‑i(6)A37 methylthiotransferase |
| RA | 717,098 | A→G | F390L (TTT→CTT) | potE ← | putrescine/proton symporter: putrescine/ornithine antiporter |
| RA | 741,429 | A→G | S376S (TCT→TCC) | dtpD ← | dipeptide and tripeptide permease D |
| RA | 781,084 | T→C | noncoding (17/76 nt) | valZ → | tRNA‑Val |
| RA | 807,115 | T→C | Q56R (CAA→CGA) | ybhC ← | acyl‑CoA thioesterase, lipoprotein |
| RA | 835,945 | A→G | Y233C (TAT→TGT) | ybiB → | putative family 3 glycosyltransferase |
| RA | 847,016 | A→G | V35A (GTA→GCA) | glnP ← | glutamine transporter subunit |
| RA | 850,338 | A→G | intergenic (‑241/‑112) | rhtA ← / → ompX | threonine and homoserine efflux system/outer membrane protein X |
| RA | 870,807 | C→T | A466V (GCG→GTG) | gsiB → | glutathione ABC transporter periplasmic binding protein |
| RA | 913,520 | Δ1 bp | coding (295/1653 nt) | hcp ← | hybrid‑cluster [4Fe‑2S‑2O] subunit of anaerobic terminal reductases |
| RA | 927,272 | T→C | D54G (GAC→GGC) | aat ← | leucyl/phenylalanyl‑tRNA‑protein transferase |
| JC JC | 944,912 | Δ1 bp :: IS186 (+) +6 bp :: Δ1 bp | intergenic (+16/+14) | dmsC → / ← ycaC | dimethyl sulfoxide reductase, anaerobic, subunit C/putative isochorismatase family hydrolase |
| RA | 1,028,132 | A→G | T63A (ACG→GCG) | yccU → | putative CoA‑binding protein |
| RA | 1,032,299 | T→C | V54A (GTG→GCG) | hyaA → | hydrogenase 1, small subunit |
| RA | 1,055,492 | T→A | A229A (GCA→GCT) | torS ← | hybrid sensory histidine kinase in two‑component regulatory system with TorR |
| RA | 1,116,797 | A→G | intergenic (‑215/‑10) | lpxL ← / → yceA | lauryl‑acyl carrier protein (ACP)‑dependent acyltransferase/putative rhodanese‑related sulfurtransferase |
| RA | 1,124,503 | T→C | H275R (CAC→CGC) | mdtH ← | multidrug resistance efflux transporter conferring overexpression resistance to norfloxacin and enoxacin |
| RA | 1,129,249 | T→C | L471L (TTG→CTG) | murJ → | putative lipid II flippase |
| RA | 1,154,782 | A→G | E224G (GAA→GGA) | yceG → | septation protein, ampicillin sensitivity |
| RA | 1,203,225 | C→T | intergenic (+1/‑43) | croE → / → ymfL | e14 prophage; putative DNA‑binding transcriptional regulator/e14 prophage; putative DNA‑binding transcriptional regulator |
| RA | 1,226,817 | A→G | Y73C (TAC→TGC) | ycgJ → | uncharacterized protein |
| RA | 1,234,629 | A→G | I30T (ATC→ACC) | nhaB ← | sodium:proton antiporter |
| RA | 1,241,779 | A→G | L98P (CTG→CCG) | cvrA ← | putative cation/proton antiporter |
| RA | 1,246,015 | T→C | A454A (GCA→GCG) | treA ← | periplasmic trehalase |
| RA | 1,288,215 | A→G | L137P (CTG→CCG) | purU ← | formyltetrahydrofolate hydrolase |
| MC JC | 1,299,499 | Δ1,199 bp | intergenic (+254/‑485) | ychE → / → oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein |
| RA | 1,307,582 | C→T | C355Y (TGC→TAC) | clsA ← | cardiolipin synthase 1 |
| RA | 1,314,744 | T→C | T161A (ACT→GCT) | yciE ← | putative rubrerythrin/ferritin‑like metal‑binding protein |
| RA | 1,360,045 | T→C | Q288Q (CAA→CAG) | puuA ← | glutamate‑‑putrescine ligase |
| RA | 1,363,578 | A→G | D279G (GAC→GGC) | puuC → | gamma‑glutamyl‑gamma‑aminobutyraldehyde dehydrogenase; succinate semialdehyde dehydrogenase |
| RA | 1,370,155 | A→G | intergenic (+152/‑61) | pspE → / → ycjM | thiosulfate:cyanide sulfurtransferase (rhodanese)/alpha amylase catalytic domain family protein |
| RA | 1,419,456 | T→C | M1M (ATG→GTG) † | ydaG ← | Rac prophage; uncharacterized protein |
| RA | 1,432,298 | A→G | T1084A (ACG→GCG) | stfR → | Rac prophage; putative tail fiber protein |
| RA | 1,454,185 | G→A | G87S (GGC→AGC) | paaA → | ring 1,2‑phenylacetyl‑CoA epoxidase subunit |
| RA | 1,483,905 | T→C | V282A (GTA→GCA) | hrpA → | putative ATP‑dependent helicase |
| RA | 1,539,343 | T→C | E1083G (GAA→GGA) | narZ ← | nitrate reductase 2 (NRZ), alpha subunit |
| RA | 1,541,602 | T→C | Y330C (TAC→TGC) | narZ ← | nitrate reductase 2 (NRZ), alpha subunit |
| RA | 1,594,132 | (C)8→9 | pseudogene (3856/3861 nt) | yneO ← | pseudogene, AidA homolog |
| RA | 1,609,015 | A→G | V3A (GTT→GCT) | yneE ← | bestrophin family putative inner membrane protein |
| RA | 1,630,461 | A→G | N151N (AAT→AAC) | ydfI ← | putative NAD‑dependent D‑mannonate oxidoreductase |
| RA | 1,687,757 | T→C | K207K (AAA→AAG) | fumA ← | fumarate hydratase (fumarase A), aerobic Class I |
| RA | 1,730,559 | G→A | P491P (CCG→CCA) | lhr → | putative ATP‑dependent helicase |
| RA | 1,754,748 | A→G | intergenic (‑271/+184) | ydhY ← / ← ydhZ | putative 4Fe‑4S ferridoxin‑type protein; FNR, Nar, NarP‑regulated protein; putative subunit of YdhYVWXUT oxidoreductase complex/uncharacterized protein |
| RA | 1,756,590 | T→C | V298A (GTT→GCT) | pykF → | pyruvate kinase I |
| RA | 1,792,078 | T→C | intergenic (‑58/+189) | ydiV ← / ← nlpC | anti‑FlhD4C2 factor, inactive EAL family phosphodiesterase/putative C40 clan peptidase lipoprotein |
| RA | 1,832,946 | T→C | R173R (CGT→CGC) | xthA → | exonuclease III |
| RA | 1,861,807 | T→C | A56A (GCA→GCG) | yeaC ← | DUF1315 family protein |
| RA | 1,863,313 | T→C | A181A (GCT→GCC) | gapA → | glyceraldehyde‑3‑phosphate dehydrogenase A |
| RA | 1,936,375 | A→G | intergenic (‑61/‑277) | zwf ← / → yebK | glucose‑6‑phosphate 1‑dehydrogenase/putative DNA‑binding transcriptional regulator |
| RA | 1,956,520 | T→C | N163S (AAC→AGC) | torZ ← | trimethylamine N‑oxide reductase system III, catalytic subunit |
| RA | 1,967,290 | C→T | G50S (GGT→AGT) | cheY ← | chemotaxis regulator transmitting signal to flagellar motor component |
| RA | 1,974,562 | T→C | T255A (ACG→GCG) | cheA ← | fused chemotactic sensory histidine kinase in two‑component regulatory system with CheB and CheY: sensory histidine kinase/signal sensing protein |
| RA | 1,977,549 | T→C | Y99C (TAC→TGC) | flhC ← | flagellar class II regulon transcriptional activator, with FlhD |
| MC JC | 1,978,503 | Δ776 bp | insB1–insA | insB1, insA | |
| RA | 2,000,046 | G→A | R114C (CGC→TGC) | fliY ← | cystine transporter subunit |
| RA | 2,016,401 | C→T | G178G (GGC→GGT) | fliH → | negative regulator of FliI ATPase activity |
| RA | 2,028,056 | T→C | intergenic (‑39/+132) | yedQ ← / ← yodC | putative membrane‑anchored diguanylate cyclase/uncharacterized protein |
| RA | 2,036,629 | A→G | A265A (GCA→GCG) | hchA → | glyoxalase III and Hsp31 molecular chaperone |
| RA | 2,082,691 | T→C | intergenic (‑144/‑65) | dacD ← / → sbcB | D‑alanyl‑D‑alanine carboxypeptidase; penicillin‑binding protein 6b/exodeoxyribonuclease I; exonuclease I |
| RA | 2,110,993 | T→C | L9L (TTA→TTG) | rfbA ← | glucose‑1‑phosphate thymidylyltransferase |
| RA | 2,117,002 | T→C | T42T (ACA→ACG) | wcaL ← | putative glycosyl transferase |
| RA | 2,136,954 | A→G | V97A (GTC→GCC) | wza ← | colanic acid export protein; outer membrane auxillary lipoprotein |
| RA | 2,173,363 | Δ2 bp | intergenic (‑1/+1) | gatC ← / ← gatC | pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC/pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC |
| RA | 2,177,605 | T→C | G320G (GGA→GGG) | fbaB ← | fructose‑bisphosphate aldolase class I |
| RA | 2,183,426 | G→A | Q76* (CAG→TAG) | yegX ← | putative family 25 glycosyl hydrolase |
| RA | 2,224,908 | C→T | intergenic (‑38/+136) | pbpG ← / ← yohC | D‑alanyl‑D‑alanine endopeptidase/Yip1 family inner membrane protein |
| RA | 2,241,409 | T→C | Q87R (CAG→CGG) | galS ← | galactose‑ and fucose‑inducible galactose regulon transcriptional isorepressor; mgl operon transcriptional repressor; autorepressor |
| RA | 2,252,698 | A→G | V333V (GTA→GTG) | yeiI → | putative kinase |
| RA | 2,258,247 | A→G | F41L (TTC→CTC) | psuG ← | pseudouridine 5'‑phosphate glycosidase |
| RA | 2,272,752 | C→T | P130L (CCC→CTC) | yejA → | microcin C ABC transporter periplasmic binding protein |
| RA | 2,389,752 | A→G | N213D (AAT→GAT) | yfbP → | TPR‑like repeats‑containing protein |
| RA | 2,460,130 | T→C | M114V (ATG→GTG) | fadI ← | beta‑ketoacyl‑CoA thiolase, anaerobic, subunit |
| RA | 2,462,119 | T→C | F272L (TTT→CTT) | fadL → | long‑chain fatty acid outer membrane transporter |
| RA | 2,462,889 | (C)9→8 | intergenic (+243/‑123) | fadL → / → yfdF | long‑chain fatty acid outer membrane transporter/uncharacterized protein |
| RA | 2,467,446 | A→G | K301R (AAG→AGG) | intS → | CPS‑53 (KpLE1) prophage; putative prophage CPS‑53 integrase |
| RA | 2,522,472 | T→C | E2E (GAA→GAG) | xapR ← | transcriptional activator of xapAB |
| RA | 2,530,256 | G→A | A326A (GCC→GCT) | zipA ← | FtsZ stabilizer |
| RA | 2,533,049 | C→T | A214V (GCG→GTG) | cysK → | cysteine synthase A, O‑acetylserine sulfhydrolase A subunit |
| RA | 2,609,458 | T→C | R324R (CGT→CGC) | hyfG → | hydrogenase 4, subunit |
| JC | 2,636,790 | (TTC)3→2 | coding (565‑567/1473 nt) | der ← | GTPase; multicopy suppressor of ftsJ |
| RA | 2,647,150 | G→A | A59V (GCT→GTT) | pbpC ← | penicillin‑insensitive murein repair transglycosylase; inactive transpeptidase domain protein |
| RA | 2,662,523 | A→G | intergenic (‑392/+60) | iscR ← / ← trmJ | isc operon transcriptional repressor; suf operon transcriptional activator; oxidative stress‑ and iron starvation‑inducible; autorepressor/tRNA mC32,mU32 2'‑O‑methyltransferase, SAM‑dependent |
| RA | 2,684,690 | G→A | A273V (GCG→GTG) | glyA ← | serine hydroxymethyltransferase |
| RA | 2,698,706 | C→A | intergenic (‑156/‑53) | pgpC ← / → yfhH | phosphatidylglycerophosphatase C, membrane bound/putative DNA‑binding transcriptional regulator |
| RA | 2,718,339 | A→G | W64R (TGG→CGG) | yfiF ← | putative methyltransferase |
| RA | 2,764,190 | A→G | F322L (TTC→CTC) | yfjL ← | CP4‑57 putative defective prophage, DUF4297/DUF1837 polymorphic toxin family protein |
| RA | 2,767,140 | T→C | L53L (TTG→CTG) | rnlB → | CP4‑57 prophage; uncharacterized protein |
| RA | 2,780,330 | G→A | G799G (GGC→GGT) | ypjA ← | adhesin‑like autotransporter |
| RA | 2,891,465 | T→C | N145S (AAC→AGC) | cysJ ← | sulfite reductase, alpha subunit, flavoprotein |
| RA | 2,898,881 | C→T | A180T (GCA→ACA) | ygcU ← | putative FAD‑linked oxidoreductase |
| RA | 2,912,885 | A→G | I256T (ATC→ACC) | relA ← | (p)ppGpp synthetase I/GTP pyrophosphokinase |
| RA | 2,931,401 | A→G | Q116R (CAG→CGG) | ygdG → | Ssb‑binding protein, misidentified as ExoIX |
| RA | 2,933,617 | Δ1 bp | coding (72/648 nt) | fucA ← | L‑fuculose‑1‑phosphate aldolase |
| RA | 3,007,381 | T→C | S374P (TCC→CCC) | ygeW → | putative carbamoyltransferase |
| RA | 3,048,315 | C→T | V243I (GTC→ATC) | gcvP ← | glycine decarboxylase, PLP‑dependent, subunit P of glycine cleavage complex |
| RA | 3,065,614 | T→C | R271R (CGT→CGC) | scpC → | propionyl‑CoA:succinate CoA transferase |
| RA | 3,086,618 | A→G | intergenic (+216/‑88) | yqgC → / → metK | uncharacterized protein/S‑adenosylmethionine synthetase |
| RA | 3,091,787 | A→G | G218G (GGA→GGG) | rsmE → | 16S rRNA m(3)U1498 methyltransferase, SAM‑dependent |
| RA | 3,093,493 | A→G | H186R (CAC→CGC) | yqgE → | uncharacterized protein |
| RA | 3,196,367 | A→T | D129E (GAT→GAA) | hldE ← | heptose 7‑phosphate kinase and heptose 1‑phosphate adenyltransferase |
| RA | 3,266,688 | C→T | A126A (GCG→GCA) | tdcA ← | tdc operon transcriptional activator |
| RA | 3,270,143 | C→T | intergenic (+541/+482) | yhaC → / ← garK | pentapetide repeats‑related protein/glycerate kinase I |
| RA | 3,272,271 | Δ1 bp | coding (481/885 nt) | garR ← | tartronate semialdehyde reductase |
| RA | 3,295,531 | T→C | R46R (CGT→CGC) | yraN → | UPF0102 family protein |
| RA | 3,311,285 | T→C | intergenic (‑117/+130) | pnp ← / ← rpsO | polynucleotide phosphorylase/polyadenylase/30S ribosomal subunit protein S15 |
| RA | 3,313,236 | T→C | intergenic (‑58/+106) | rbfA ← / ← infB | 30s ribosome binding factor/translation initiation factor IF‑2 |
| RA | 3,376,403 | T→C | D125G (GAC→GGC) | sspB ← | ClpXP protease specificity enhancing factor |
| RA | 3,377,215 | A→G | L69P (CTG→CCG) | sspA ← | stringent starvation protein A, phage P1 late gene activator, RNAP‑associated acid‑resistance protein, inactive glutathione S‑transferase homolog |
| RA | 3,440,116 | T→C | D305G (GAC→GGC) | rpoA ← | RNA polymerase, alpha subunit |
| RA | 3,449,100 | T→C | T24A (ACG→GCG) | rplP ← | 50S ribosomal subunit protein L16 |
| RA | 3,511,488 | A→G | L286P (CTC→CCC) | yhfZ ← | putative DNA‑binding transcriptional regulator |
| RA | 3,515,565 | A→G | Y117H (TAC→CAC) | dam ← | DNA adenine methyltransferase |
| RA | 3,524,787 | T→C | A639A (GCT→GCC) | mrcA → | penicillin‑binding protein 1a, murein transglycosylase and transpeptidase |
| RA | 3,525,382 | A→G | T838A (ACG→GCG) | mrcA → | penicillin‑binding protein 1a, murein transglycosylase and transpeptidase |
| RA | 3,552,089 | T→C | T129A (ACT→GCT) | malP ← | maltodextrin phosphorylase |
| RA | 3,560,455 | +G | intergenic (‑2/+1) | glpR ← / ← glpR | pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon/pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon |
| RA | 3,575,617 | G→A | A183T (GCA→ACA) | yhgN → | UPF0056 family inner membrane protein |
| RA | 3,601,276 | G→A | P271S (CCG→TCG) | ftsX ← | putative ABC transporter permease |
| RA | 3,612,540 | T→C | W226R (TGG→CGG) | yhhT → | UPF0118 family putative transporter |
| RA | 3,631,895 | G→A | S232S (AGC→AGT) | yhiJ ← | DUF4049 family protein |
| RA | 3,717,476 | T→C | V56A (GTA→GCA) | ghrB → | glyoxylate/hydroxypyruvate reductase B |
| RA | 3,725,236 | A→G | V28A (GTT→GCT) | glyQ ← | glycine tRNA synthetase, alpha subunit |
| RA | 3,753,413 | A→G | Y229Y (TAT→TAC) | yiaV ← | signal‑anchored membrane fusion protein (MFP) component of efflux pump |
| RA | 3,770,892 | T→C | D163G (GAC→GGC) | yibH ← | putative membrane fusion protein (MFP) component of efflux pump |
| RA | 3,781,563 | G→A | E117K (GAA→AAA) | trmL → | tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| RA | 3,788,944 | T→C | F282L (TTT→CTT) | yibQ → | putative polysaccharide deacetylase |
| RA | 3,790,211 | T→C | intergenic (‑130/+109) | waaH ← / ← tdh | LPS(HepIII)‑glucuronic acid glycosyltransferase/L‑threonine 3‑dehydrogenase, NAD(P)‑binding |
| RA | 3,815,808 | (A)8→7 | intergenic (‑40/+26) | pyrE ← / ← rph | orotate phosphoribosyltransferase/ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH |
| RA | 3,828,150 | G→A | G172G (GGC→GGT) | gltS ← | glutamate transporter |
| RA | 3,836,534 | (C)6→7 | pseudogene (110/132 nt) | yicT → | pseudogene |
| RA | 3,893,403 | C→T | S213S (AGC→AGT) | yidZ → | putative DNA‑binding transcriptional regulator |
| RA | 3,907,945 | T→C | N141S (AAC→AGC) | pstB ← | phosphate ABC transporter ATPase |
| RA | 3,914,638 | G→C | T188S (ACC→AGC) | glmU ← | fused N‑acetyl glucosamine‑1‑phosphate uridyltransferase/glucosamine‑1‑phosphate acetyl transferase |
| RA | 3,916,435 | G→A | A314V (GCG→GTG) | atpD ← | F1 sector of membrane‑bound ATP synthase, beta subunit |
| RA | 3,940,308 | A→G | L102P (CTG→CCG) | hsrA ← | putative multidrug or homocysteine efflux system |
| RA | 3,943,370 | C→T | intergenic (+21/‑65) | rrsC → / → gltU | 16S ribosomal RNA of rrnC operon/tRNA‑Glu |
| RA | 3,949,005 | T→C | Q322R (CAG→CGG) | yifB ← | magnesium chelatase family protein and putative transcriptional regulator |
| RA | 3,951,452 | C→T | pseudogene (893/984 nt) | ilvG → | pseudogene, acetolactate synthase 2 large subunit, valine‑insensitive; acetolactate synthase II, large subunit, cryptic, interrupted |
| RA | 3,967,093 | A→G | E226G (GAA→GGA) | rho → | transcription termination factor |
| RA | 4,003,303 | A→G | R292R (CGT→CGC) | rarD ← | putative chloramphenical resistance permease |
| RA | 4,017,296 | T→C | intergenic (+104/‑37) | udp → / → rmuC | uridine phosphorylase/DNA recombination protein |
| RA | 4,098,989 | A→G | H115R (CAC→CGC) | rhaR → | transcriptional activator of rhaSR |
| RA | 4,102,930 | C→T | L37L (CTG→TTG) | yiiM → | 6‑N‑hydroxylaminopurine resistance protein |
| RA | 4,109,803 | G→A | D324N (GAT→AAT) | sbp → | sulfate transporter subunit |
| RA | 4,128,316 | A→G | V27A (GTT→GCT) | metJ ← | transcriptional repressor, S‑adenosylmethionine‑binding |
| RA | 4,129,743 | A→G | T358A (ACG→GCG) | metB → | cystathionine gamma‑synthase, PLP‑dependent |
| RA | 4,143,617 | A→G | intergenic (+8/‑7) | frwC → / → frwB | putative enzyme IIC component of PTS/putative enzyme IIB component of PTS |
| RA | 4,154,549 | T→C | E100G (GAG→GGG) | argE ← | acetylornithine deacetylase |
| RA | 4,185,098 | A→G | Y1285C (TAC→TGC) | rpoB → | RNA polymerase, beta subunit |
| RA | 4,188,413 | C→T | P1022S (CCG→TCG) | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,307,043 | C→T | A253T (GCC→ACC) | alsK ← | D‑allose kinase |
| RA | 4,342,193 | A→G | T95A (ACG→GCG) | melA → | alpha‑galactosidase, NAD(P)‑binding |
| RA | 4,356,166 | C→T | A82A (GCG→GCA) | dtpC ← | dipeptide and tripeptide permease |
| RA | 4,357,602 | A→G | F339S (TTC→TCC) | cadA ← | lysine decarboxylase, acid‑inducible |
| RA | 4,366,223 | A→G | F184S (TTC→TCC) | dcuA ← | C4‑dicarboxylate antiporter |
| RA | 4,399,151 | Δ1 bp | coding (1740/1848 nt) | mutL → | methyl‑directed mismatch repair protein |
| RA | 4,453,330 | A→G | N254D (AAC→GAC) | ytfT → | putative sugar ABC transporter permease |
| RA | 4,485,872 | C→T | R27H (CGC→CAC) | pepA ← | multifunctional aminopeptidase A: a cyteinylglycinase, transcription regulator and site‑specific recombination factor |
| RA | 4,503,643 | T→C | intergenic (‑212/‑415) | insG ← / → yjhB | IS4 transposase/putative MFS transporter, membrane protein |
| RA | 4,550,206 | G→A | A364V (GCC→GTC) | gntP ← | fructuronate transporter |
| RA | 4,586,424 | C→T | R113H (CGC→CAC) | hsdR ← | endonuclease R Type I restriction enzyme |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3423736–3424233 | 3424613–3424238 | 6–878 | 16 [15] | [15] 17 | [rrfD]–[rrlD] | [rrfD], [rrlD] |
| * | * | ÷ | NC_000913 | 4035275–4035732 | 4037742–4035736 | 5–2468 | 16 [15] | [15] 16 | rrsA–[rrlA] | rrsA, ileT, alaT, [rrlA] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 3 (0.080) | 23 (0.650) | 23/266 | 0.9 | 81.2% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 8 (0.230) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 3 (0.080) | 30 (0.850) | 28/266 | 0.5 | 84.9% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 8 (0.230) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||