mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.32.0 revision 6ff6de7d1b87
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | position | mutation | freq | annotation | gene | description |
| RA | 37,250 | A→C | 18.6% | V192G (GTG→GGG) | caiC ← | putative crotonobetaine/carnitine‑CoA ligase |
| RA | 37,255 | A→C | 22.4% | G190G (GGT→GGG) | caiC ← | putative crotonobetaine/carnitine‑CoA ligase |
| RA | 68,880 | T→G | 13.9% | H390P (CAC→CCC) | araB ← | L‑ribulokinase |
| RA | 74,046 | A→G | 18.4% | L159P (CTC→CCC) | thiP ← | thiamine/thiamine pyrophosphate ABC transporter permease |
| RA | 134,764 | A→G | 18.4% | intergenic (+14/+24) | yacL → / ← speD | UPF0231 family protein/S‑adenosylmethionine decarboxylase |
| RA | 144,068 | C→T | 14.9% | L123L (CTG→TTG) | yadH → | putative ABC transporter permease |
| MC JC | 257,908 | Δ776 bp | 100% | [crl] | [crl] | |
| RA | 303,404 | A→T | 11.2% | L138F (TTA→TTT) | yagU → | DUF1440 family inner membrane acid resistance protein |
| RA | 422,231 | A→T | 17.8% | I416F (ATC→TTC) | proY → | proline‑specific permease |
| RA | 422,247 | A→T | 14.7% | Y421F (TAT→TTT) | proY → | proline‑specific permease |
| RA | 489,597 | T→G | 9.5% | V1021G (GTG→GGG) | mscK → | mechanosensitive channel protein, intermediate conductance, K+ regulated |
| RA | 494,160 | G→C | 6.7% | A29P (GCG→CCG) | ybaB → | DNA‑binding protein, putative nucleoid‑associated protein |
| RA | 538,370 | C→G | 14.1% | S246R (AGC→AGG) | ybbW → | putative allantoin transporter |
| RA | 540,546 | C→T | 12.9% | intergenic (+38/‑19) | allB → / → ybbY | allantoinase/putative uracil/xanthine transporter |
| RA | 540,610 | C→T | 12.5% | Q16* (CAG→TAG) | ybbY → | putative uracil/xanthine transporter |
| RA | 602,635 | A→G | 12.8% | E226G (GAG→GGG) | pheP → | phenylalanine transporter |
| RA | 647,210 | A→C | 24.3% | G100G (GGT→GGG) | citG ← | 2‑(5''‑triphosphoribosyl)‑3'‑dephosphocoenzyme‑A synthase |
| RA | 653,049 | T→G | 21.0% | V272G (GTG→GGG) | citA → | sensory histidine kinase in two‑component regulatory system with CitB |
| RA | 665,104 | A→C | 12.9% | S29R (AGT→AGG) | rlpA ← | septal ring protein, suppressor of prc, minor lipoprotein |
| RA | 673,888 | T→C | 16.3% | E299G (GAG→GGG) | leuS ← | leucyl‑tRNA synthetase |
| RA | 722,769 | A→C | 14.2% | V549G (GTG→GGG) | kdpD ← | fused sensory histidine kinase in two‑component regulatory system with KdpE: signal sensing protein |
| RA | 734,765 | T→G | 23.1% | pseudogene (633/1521 nt) | rhsO → | pseudogene, Rhs family |
| RA | 734,789 | T→G | 21.3% | pseudogene (657/1521 nt) | rhsO → | pseudogene, Rhs family |
| RA | 734,952 | T→G | 13.0% | pseudogene (820/1521 nt) | rhsO → | pseudogene, Rhs family |
| RA | 762,113 | T→C | 17.5% | S198P (TCC→CCC) | sucB → | dihydrolipoyltranssuccinase |
| RA | 789,959 | T→G | 13.0% | T7T (ACA→ACC) | galK ← | galactokinase |
| RA | 807,112 | T→G | 23.8% | H57P (CAC→CCC) | ybhC ← | acyl‑CoA thioesterase, lipoprotein |
| RA | 871,336 | C→G | 19.9% | R124G (CGT→GGT) | gsiC → | glutathione ABC transporter permease |
| RA | 921,692 | T→G | 12.5% | V449G (GTG→GGG) | macB → | macrolide ABC transporter peremase/ATPase |
| RA | 954,395 | G→A | 21.9% | V24V (GTC→GTT) | focA ← | formate channel |
| RA | 956,640 | A→C | 13.4% | intergenic (‑8/‑122) | ycaO ← / → ycaP | ribosomal protein S12 methylthiotransferase accessory factor/UPF0702 family putative inner membrane protein |
| RA | 967,600 | A→G | 12.7% | E327G (GAG→GGG) | msbA → | lipid ABC transporter permease/ATPase |
| RA | 973,698 | A→G | 11.7% | G54G (GGA→GGG) | smtA → | putative S‑adenosyl‑L‑methionine‑dependent methyltransferase |
| RA | 983,691:1 | +C | 3.8% | coding (42/648 nt) | ycbL → | putative metal‑binding enzyme |
| RA | 983,900 | A→G | 11.2% | E84G (GAG→GGG) | ycbL → | putative metal‑binding enzyme |
| RA | 1,058,486 | T→C | 15.8% | S135P (TCG→CCG) | torC → | trimethylamine N‑oxide (TMAO) reductase I, cytochrome c‑type subunit |
| RA | 1,061,012 | A→G | 3.6% | E586G (GAA→GGA) | torA → | trimethylamine N‑oxide (TMAO) reductase I, catalytic subunit |
| RA | 1,065,745 | A→G | 10.6% | E54G (GAG→GGG) | agp → | glucose‑1‑phosphatase/inositol phosphatase |
| RA | 1,078,659 | T→G | 15.6% | H75P (CAC→CCC) | putA ← | fused DNA‑binding transcriptional regulator/proline dehydrogenase/pyrroline‑5‑carboxylate dehydrogenase |
| RA | 1,130,055 | A→T | 17.0% | V25E (GTA→GAA) | flgM ← | anti‑sigma factor for FliA (sigma 28) |
| RA | 1,170,684 | T→G | 13.9% | H1094P (CAC→CCC) | mfd ← | transcription‑repair coupling factor |
| RA | 1,175,770 | T→C | 11.1% | L115P (CTC→CCC) | lolC → | lipoprotein‑releasing system transmembrane protein |
| RA | 1,196,305 | C→T | 77.8% | R395C (CGT→TGT) | icd → | isocitrate dehydrogenase, e14 prophage attachment site, tellurite reductase |
| RA | 1,242,879 | T→G | 14.7% | T68P (ACC→CCC) | ldcA ← | murein tetrapeptide carboxypeptidase, LD‑carboxypeptidase A |
| MC JC | 1,299,499 | Δ1,199 bp | 100% | intergenic (+254/‑485) | ychE → / → oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein |
| RA | 1,415,383 | T→G | 16.2% | A668A (GCA→GCC) | recE ← | Rac prophage, exonuclease VIII, 5' to 3' specific dsDNA exonuclease |
| RA | 1,426,178 | A→T | 4.9% | intergenic (+96/‑276) | ydaY → / → tmpR | pseudogene, Rac prophage,Phage or Prophage Related/Rac prophage, pseudogene, tail protein family,Phage or Prophage Related, putative alpha helix protein |
| RA | 1,428,307 | A→G | 5.6% | T140T (ACT→ACC) | insH1 ← | IS5 transposase and trans‑activator |
| RA | 1,428,370 | A→G | 6.5% | R119R (CGT→CGC) | insH1 ← | IS5 transposase and trans‑activator |
| RA | 1,431,464 | A→T | 12.9% | I806F (ATT→TTT) | stfR → | Rac prophage, putative tail fiber protein |
| RA | 1,435,704 | G→A | 12.1% | intergenic (‑85/+56) | uspF ← / ← ompN | stress‑induced protein, ATP‑binding protein/outer membrane pore protein N, non‑specific |
| RA | 1,435,706 | T→A | 17.5% | intergenic (‑87/+54) | uspF ← / ← ompN | stress‑induced protein, ATP‑binding protein/outer membrane pore protein N, non‑specific |
| RA | 1,478,311 | A→G | 18.3% | E29G (GAG→GGG) | ynbB → | putative CDP‑diglyceride synthase |
| RA | 1,511,862 | T→G | 18.1% | V70G (GTG→GGG) | ydcS → | putative ABC transporter periplasmic binding protein |
| RA | 1,520,118 | C→T | 18.5% | intergenic (+54/‑144) | curA → / → mcbR | curcumin/dihydrocurcumin reductase, NADPH‑dependent/colanic acid and biofilm gene transcriptional regulator, MqsR‑controlled |
| RA | 1,619,521 | A→C | 13.5% | T134T (ACA→ACC) | marR → | transcriptional repressor of multiple antibiotic resistance |
| RA | 1,645,285 | T→C | 8.5% | intergenic (‑11/+61) | hokD ← / ← relE | Qin prophage, small toxic polypeptide/Qin prophage, toxin of the RelE‑RelB toxin‑antitoxin system |
| RA | 1,720,129 | C→T | 14.2% | S85F (TCT→TTT) | slyB → | outer membrane lipoprotein |
| RA | 1,724,338 | A→C | 15.8% | G106G (GGT→GGG) | sodC ← | superoxide dismutase, Cu, Zn, periplasmic |
| RA | 1,731,897 | T→G | 19.6% | G937G (GGT→GGG) | lhr → | putative ATP‑dependent helicase |
| RA | 1,747,279 | C→A | 15.4% | S50* (TCA→TAA) | ydhS → | putative oxidoreductase |
| RA | 1,825,164 | A→T | 26.6% | G154G (GGT→GGA) | spy ← | periplasmic ATP‑independent protein refolding chaperone, stress‑induced |
| RA | 1,825,257 | C→T | 15.5% | Q123Q (CAG→CAA) | spy ← | periplasmic ATP‑independent protein refolding chaperone, stress‑induced |
| RA | 1,842,793 | T→G | 24.6% | G141G (GGT→GGG) | gdhA → | glutamate dehydrogenase, NADP‑specific |
| RA | 1,977,062 | T→C | 15.0% | G26G (GGA→GGG) | motA ← | proton conductor component of flagella motor |
| RA | 2,007,105 | T→G | 23.2% | V317G (GTG→GGG) | amyA → | cytoplasmic alpha‑amylase |
| RA | 2,014,217 | C→A | 21.8% | A330E (GCA→GAA) | fliF → | flagellar basal‑body MS‑ring and collar protein |
| RA | 2,076,441 | A→G | 15.5% | E45G (GAG→GGG) | yeeS → | CP4‑44 prophage, putative DNA repair protein |
| RA | 2,080,362 | A→C | 15.4% | V77G (GTG→GGG) | yeeA ← | putative transporter, FUSC family inner membrane protein |
| RA | 2,098,166 | T→A | 11.9% | I46F (ATT→TTT) | wzzB ← | regulator of length of O‑antigen component of lipopolysaccharide chains |
| RA | 2,120,818 | A→G | 27.5% | L246P (CTC→CCC) | wcaJ ← | colanic biosynthesis UDP‑glucose lipid carrier transferase |
| RA | 2,126,971 | T→G | 14.1% | T74P (ACC→CCC) | wcaG ← | bifunctional GDP‑fucose synthetase: GDP‑4‑dehydro‑6‑deoxy‑D‑mannose epimerase/ GDP‑4‑dehydro‑6‑L‑deoxygalactose reductase |
| RA | 2,132,787 | A→C | 100% | I204S (ATC→AGC) | wcaA ← | putative glycosyl transferase |
| RA | 2,145,868 | A→G | 14.8% | E868G (GAG→GGG) | yegE → | putative diguanylate cyclase |
| RA | 2,195,580 | T→G | 13.0% | V428G (GTG→GGG) | metG → | methionyl‑tRNA synthetase |
| RA | 2,308,456 | T→C | 14.1% | E53G (GAG→GGG) | yojI ← | microcin J25 efflux ABC transporter permease/ATPase |
| RA | 2,371,563 | C→T | 12.0% | L220F (CTC→TTC) | arnT → | 4‑amino‑4‑deoxy‑L‑arabinose transferase |
| RA | 2,424,821 | T→C | 9.6% | R137R (AGA→AGG) | hisM ← | histidine ABC transporter permease |
| RA | 2,477,257 | T→G | 19.7% | D124A (GAC→GCC) | dsdC ← | dsd operon activator, autorepressor |
| RA | 2,490,509 | T→C | 17.7% | G480G (GGA→GGG) | oxc ← | oxalyl CoA decarboxylase, ThDP‑dependent |
| RA | 2,518,358 | T→C | 5.4% | intergenic (‑129/‑107) | alaW ← / → yfeC | tRNA‑Ala/DUF1323 family putative DNA‑binding protein |
| RA | 2,528,435 | A→C | 13.7% | G580G (GGT→GGG) | ligA ← | DNA ligase, NAD(+)‑dependent |
| RA | 2,557,473 | A→G | 14.2% | L402P (CTC→CCC) | eutB ← | ethanolamine ammonia‑lyase, large subunit, heavy chain |
| RA | 2,662,349 | A→T | 6.1% | intergenic (‑220/+232) | 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 | 2,685,584 | C→A | 10.7% | intergenic (‑79/‑249) | glyA ← / → hmp | serine hydroxymethyltransferase/fused nitric oxide dioxygenase/dihydropteridine reductase 2 |
| RA | 2,685,607 | T→G | 11.0% | intergenic (‑102/‑226) | glyA ← / → hmp | serine hydroxymethyltransferase/fused nitric oxide dioxygenase/dihydropteridine reductase 2 |
| RA | 2,711,636 | A→C | 18.0% | T407P (ACC→CCC) | nadB → | quinolinate synthase, L‑aspartate oxidase (B protein) subunit |
| RA | 2,718,257 | A→C | 14.6% | S90R (AGT→AGG) | yfiF ← | putative methyltransferase |
| RA | 2,776,553 | A→G | 12.6% | E57G (GAG→GGG) | yfjY → | CP4‑57 prophage, putative DNA repair protein |
| RA | 2,876,557 | G→T | 20.6% | intergenic (‑230/‑22) | cysD ← / → iap | sulfate adenylyltransferase, subunit 2/aminopeptidase in alkaline phosphatase isozyme conversion |
| RA | 2,877,025 | T→G | 15.6% | G149G (GGT→GGG) | iap → | aminopeptidase in alkaline phosphatase isozyme conversion |
| RA | 2,903,067 | G→T | 12.9% | A392S (GCC→TCC) | ygcE → | putative kinase |
| RA | 2,935,990 | T→C | 11.7% | S137P (TCC→CCC) | fucI → | L‑fucose isomerase |
| RA | 2,973,771 | Δ1 bp | 3.6% | coding (90/1194 nt) | lplT ← | lysophospholipid transporter |
| RA | 2,978,144 | G→C | 15.0% | R252G (CGT→GGT) | lysA ← | diaminopimelate decarboxylase, PLP‑binding |
| RA | 2,978,164 | T→A | 21.8% | Y245F (TAT→TTT) | lysA ← | diaminopimelate decarboxylase, PLP‑binding |
| RA | 2,999,100 | Δ1 bp | 3.4% | intergenic (‑45/+34) | glyU ← / ← ygeR | tRNA‑Gly/LysM domain‑containing M23 family putative peptidase, septation lipoprotein |
| RA | 3,027,729 | A→G | 13.1% | E204G (GAG→GGG) | ghxQ → | guanine/hypoxanthine permease, high affinity, guanine/hypoxanthine:H+ symporter |
| RA | 3,046,443 | A→C | 15.9% | V866G (GTG→GGG) | gcvP ← | glycine decarboxylase, PLP‑dependent, subunit P of glycine cleavage complex |
| RA | 3,051,837 | A→C | 14.1% | V160G (GTG→GGG) | ubiI ← | 2‑octaprenylphenol hydroxylase, FAD‑dependent |
| RA | 3,088,506 | C→T | 12.2% | L75L (CTC→CTT) | galP → | D‑galactose transporter |
| RA | 3,124,051 | T→C | 13.0% | E60G (GAG→GGG) | glcG ← | DUF336 family protein |
| RA | 3,178,956 | T→C | 13.1% | S282P (TCT→CCT) | tolC → | transport channel |
| RA | 3,199,933 | A→G | 12.2% | I344T (ATC→ACC) | ygiF ← | inorganic triphosphatase |
| RA | 3,206,444 | C→A | 100% | intergenic (‑190/‑17) | ttdR ← / → ttdA | transcriptional activator of ttdABT/L‑tartrate dehydratase, alpha subunit |
| RA | 3,258,832 | A→C | 13.6% | S272R (AGT→AGG) | tdcG ← | L‑serine dehydratase 3, anaerobic |
| RA | 3,277,507 | A→G | 14.6% | E58G (GAG→GGG) | yhaV → | toxin of the SohB(PrlF)‑YhaV toxin‑antitoxin system |
| RA | 3,277,523 | T→A | 11.4% | N63K (AAT→AAA) | yhaV → | toxin of the SohB(PrlF)‑YhaV toxin‑antitoxin system |
| RA | 3,293,717 | A→G | 17.4% | E107G (GAG→GGG) | lpoA → | OM lipoprotein stimulator of MrcA transpeptidase |
| RA | 3,313,743 | A→C | 9.4% | V757G (GTG→GGG) | infB ← | translation initiation factor IF‑2 |
| RA | 3,335,758 | A→G | 12.4% | S245S (TCT→TCC) | murA ← | UDP‑N‑acetylglucosamine 1‑carboxyvinyltransferase |
| RA | 3,412,896 | C→T | 14.6% | A190T (GCC→ACC) | acrS ← | acrAB operon transcriptional repressor |
| RA | 3,486,506 | A→G | 11.8% | E130G (GAG→GGG) | crp → | cAMP‑activated global transcription factor, mediator of catabolite repression |
| RA | 3,510,049 | A→C | 11.5% | V309G (GTG→GGG) | yhfX ← | putative pyridoxal 5'‑phosphate binding protein |
| RA | 3,521,055 | A→C | 16.8% | G131G (GGT→GGG) | hofO ← | DNA catabolic protein |
| RA | 3,532,593 | C→A | 18.1% | intergenic (‑156/‑223) | yhgE ← / → pck | DUF4153 family putative inner membrane protein/phosphoenolpyruvate carboxykinase [ATP] |
| RA | 3,604,564 | A→G | 10.5% | D58G (GAT→GGT) | rsmD → | 16S rRNA m(2)G966 methyltransferase, SAM‑dependent |
| RA | 3,608,248 | A→G | 16.8% | E600G (GAG→GGG) | zntA → | zinc, cobalt and lead efflux system |
| RA | 3,639,574 | A→G | 4.3% | F49S (TTT→TCT) | uspB ← | universal stress (ethanol tolerance) protein B |
| RA | 3,640,983 | C→T | 20.1% | F41F (TTC→TTT) | dtpB → | dipeptide and tripeptide permease B |
| RA | 3,670,359 | A→G | 5.3% | M257V (ATG→GTG) | treF → | cytoplasmic trehalase |
| RA | 3,749,742 | A→G | 17.4% | E171G (GAG→GGG) | sgbU → | putative L‑xylulose 5‑phosphate 3‑epimerase |
| RA | 3,782,912 | A→C | 38.6% | V250G (GTG→GGG) | gpsA ← | glycerol‑3‑phosphate dehydrogenase (NAD+) |
| MC JC | 3,815,858 | Δ82 bp | 100% | [rph]–[rph] | [rph], [rph] | |
| RA | 3,817,476 | T→C | 11.1% | S268P (TCC→CCC) | yicC → | UPF0701 family protein |
| RA | 3,820,324 | T→C | 15.8% | R282R (CGA→CGG) | ligB ← | DNA ligase, NAD(+)‑dependent |
| RA | 3,838,901 | C→T | 10.6% | L219L (CTG→TTG) | yicL → | EamA family inner membrane putative transporter |
| RA | 3,859,758 | T→A | 7.5% | I120F (ATC→TTC) | yidK ← | putative transporter |
| RA | 3,875,520 | T→C | 18.6% | A28A (GCT→GCC) | yidX → | putative lipoprotein |
| RA | 3,879,935 | T→G | 24.0% | T62P (ACC→CCC) | gyrB ← | DNA gyrase, subunit B |
| RA | 3,897,085 | T→G | 8.9% | C105G (TGT→GGT) | yieH → | phosphoenolpyruvate and 6‑phosphogluconate phosphatase |
| RA | 3,932,241 | C→T | 12.3% | F309F (TTC→TTT) | kup → | potassium transporter |
| RA | 3,959,900 | T→G | 14.0% | intergenic (‑88/+111) | ppiC ← / ← yifN | peptidyl‑prolyl cis‑trans isomerase C (rotamase C)/PemK toxin family pseudogene |
| RA | 3,983,146 | C→A | 10.8% | Q64K (CAA→AAA) | aslB → | putative AslA‑specific sulfatase‑maturating enzyme |
| RA | 3,983,164 | A→C | 17.6% | T70P (ACC→CCC) | aslB → | putative AslA‑specific sulfatase‑maturating enzyme |
| JC | 4,001,644 | Δ5 bp | 95.7% | coding (220‑224/951 nt) | corA → | magnesium/nickel/cobalt transporter |
| RA | 4,043,013 | A→G | 22.4% | G200G (GGA→GGG) | srkA → | Cpx stress response Thr/Ser protein kinase, MazF antagonist protein |
| RA | 4,065,603 | T→A | 17.1% | I55F (ATC→TTC) | yihO ← | putative sulphoquinovose importer |
| RA | 4,103,632 | A→C | 18.4% | V448G (GTG→GGG) | cpxA ← | sensory histidine kinase in two‑component regulatory system with CpxR |
| RA | 4,138,036 | A→C | 17.3% | G333G (GGT→GGG) | gldA ← | glycerol dehydrogenase, NAD+ dependent, 1,2‑propanediol:NAD+ oxidoreductase |
| RA | 4,143,144 | A→G | 15.0% | I206V (ATT→GTT) | frwC → | putative enzyme IIC component of PTS |
| RA | 4,145,087 | G→C | 13.7% | R365P (CGC→CCC) | pflD → | putative glycine radical domain‑containing pyruvate formate‑lyase |
| RA | 4,155,280 | A→G | 3.7% | E94G (GAA→GGA) | argC → | N‑acetyl‑gamma‑glutamylphosphate reductase, NAD(P)‑binding |
| RA | 4,160,853 | C→T | 20.1% | intergenic (‑64/‑270) | sthA ← / → fabR | pyridine nucleotide transhydrogenase, soluble/transcriptional repressor of fabA and fabB |
| RA | 4,184,542 | C→A | 100% | P1100Q (CCG→CAG) | rpoB → | RNA polymerase, beta subunit |
| RA | 4,241,837 | G→C | 10.0% | G139G (GGC→GGG) | xylE ← | D‑xylose transporter |
| RA | 4,300,841 | A→G | 12.6% | L64P (CTC→CCC) | mdtP ← | outer membrane factor of efflux pump |
| RA | 4,334,104 | A→T | 7.9% | Y496* (TAT→TAA) | eptA ← | lipid A phosphoethanolamine transferase |
| RA | 4,339,119 | G→A | 6.7% | F468F (TTC→TTT) | adiA ← | arginine decarboxylase |
| RA | 4,366,233 | A→C | 11.6% | V181G (GTG→GGG) | dcuA ← | C4‑dicarboxylate antiporter |
| RA | 4,368,876 | A→G | 26.2% | E71G (GAG→GGG) | fxsA → | suppressor of F exclusion of phage T7 |
| RA | 4,428,195 | A→C | 9.2% | V175G (GTG→GGG) | ytfB ← | OapA family protein |
| RA | 4,440,924 | T→C | 8.4% | E98G (GAG→GGG) | ytfL ← | UPF0053 family inner membrane protein |
| RA | 4,510,751 | G→C | 11.1% | S236R (AGC→AGG) | fecE ← | ferric citrate ABC transporter ATPase |
| RA | 4,522,784 | T→G | 16.0% | T438P (ACC→CCC) | yjhG ← | putative dehydratase |
| RA | 4,534,590 | A→G | 14.9% | pseudogene (87/246 nt) | yjhZ ← | pseudogene, rimK paralog, C‑terminal fragment |
| RA | 4,537,715 | A→C | 16.0% | V351G (GTG→GGG) | nanM ← | N‑acetylneuraminic acid mutarotase |
| RA | 4,579,657 | A→C | 17.4% | V62G (GTG→GGG) | symE ← | toxic peptide regulated by antisense sRNA symR |
| RA | 4,582,257 | T→G | 21.8% | T265P (ACT→CCT) | hsdM ← | DNA methyltransferase M |
| RA | 4,594,558 | G→A | 20.0% | L56F (CTC→TTC) | lgoT ← | putative L‑galactonate:H+ symporter |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 2033790 | 2034036 | 247 | 27 [23] | [25] 29 | rseX/yedS | sRNA antisense regulator of ompA and ompC translation, Hfq‑dependent/pseudogene, outer membrane protein homology, putative outer membrane protein |
| * | * | ÷ | NC_000913 | 2469231 | 2469810 | 580 | 27 [25] | [24] 27 | gtrS | serotype‑specific glucosyl transferase, CPS‑53 (KpLE1) prophage |
| * | * | ÷ | NC_000913 | 3769577 | 3769936 | 360 | 26 [25] | [25] 27 | [yibV]–yibV | [yibV], yibV |
| * | * | ÷ | NC_000913 | 3798990 | 3799544 | 555 | 26 [24] | [24] 28 | [waaU]–[waaZ] | [waaU], [waaZ] |
| * | * | ÷ | NC_000913 | 4233746 | 4235425 | 1680 | 26 [25] | [25] 26 | pgi | pgi |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 257908 = | NA (NA) | 83 (0.940) | 52/424 | NT | 100% | intergenic (+9/‑768) | crl/crl | pseudogene, sigma factor‑binding protein, RNA polymerase holoenzyme formation stimulator,regulator, Surface structures, transcriptional regulator of cryptic csgA gene for curli surface fibers/pseudogene, sigma factor‑binding protein, RNA polymerase holoenzyme formation stimulator,regulator, Surface structures, transcriptional regulator of cryptic csgA gene for curli surface fibers |
| ? | NC_000913 | = 1293039 | 0 (0.000) | intergenic (‑117/‑488) | hns/tdk | global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase | |||||
| * | ? | NC_000913 | 458787 = | 20 (0.230) | 65 (0.750) | 44/418 | NT | 76.7% | intergenic (+87/‑101) | clpX/lon | ATPase and specificity subunit of ClpX‑ClpP ATP‑dependent serine protease/DNA‑binding ATP‑dependent protease La |
| ? | NC_000913 | 608011 = | NA (NA) | intergenic (+23/‑54) | hokE/insL1 | toxic polypeptide, small/IS186 transposase | |||||
| * | ? | NC_000913 | = 458799 | 22 (0.250) | 61 (0.710) | 49/416 | NT | 73.9% | intergenic (+99/‑89) | clpX/lon | ATPase and specificity subunit of ClpX‑ClpP ATP‑dependent serine protease/DNA‑binding ATP‑dependent protease La |
| ? | NC_000913 | = 609347 | NA (NA) | intergenic (+170/+112) | insL1/entD | IS186 transposase/phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex | |||||
| * | ? | NC_000913 | 1113532 = | 89 (1.010) | 3 (0.040) | 3/400 | NT | 3.5% | intergenic (+126/‑47) | opgH/yceK | OPG biosynthetic ACP‑dependent transmembrane UDP‑glucose beta‑1,2 glycosyltransferase, nutrient‑dependent cell size regulator, FtsZ assembly antagonist/outer membrane integrity lipoprotein |
| ? | NC_000913 | 1113561 = | 82 (0.990) | intergenic (+155/‑18) | opgH/yceK | OPG biosynthetic ACP‑dependent transmembrane UDP‑glucose beta‑1,2 glycosyltransferase, nutrient‑dependent cell size regulator, FtsZ assembly antagonist/outer membrane integrity lipoprotein | |||||
| * | ? | NC_000913 | 1207790 = | 15 (0.170) | 88 (1.080) | 56/392 | NT | 88.5% | coding (290/630 nt) | stfP | e14 prophage, uncharacterized protein |
| ? | NC_000913 | 1209619 = | 9 (0.110) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage, side tail fiber protein fragment family,Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 14 (0.160) | 90 (1.110) | 57/392 | NT | 89.1% | coding (305/630 nt) | stfP | e14 prophage, uncharacterized protein |
| ? | NC_000913 | = 1209602 | 9 (0.110) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage, side tail fiber protein fragment family,Phage or Prophage Related | |||||
| * | ? | NC_000913 | 1293032 = | 4 (0.050) | 85 (0.970) | 56/424 | NT | 95.5% | intergenic (‑110/‑495) | hns/tdk | global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase |
| ? | NC_000913 | = 1979270 | NA (NA) | intergenic (‑55/‑483) | insA/uspC | IS1 repressor TnpA/universal stress protein | |||||
| * | ? | NC_000913 | 1426168 = | 100 (1.140) | 5 (0.060) | 5/404 | NT | 4.9% | intergenic (+86/‑286) | ydaY/tmpR | pseudogene, Rac prophage,Phage or Prophage Related/Rac prophage, pseudogene, tail protein family,Phage or Prophage Related, putative alpha helix protein |
| ? | NC_000913 | 1426189 = | 97 (1.160) | intergenic (+107/‑265) | ydaY/tmpR | pseudogene, Rac prophage,Phage or Prophage Related/Rac prophage, pseudogene, tail protein family,Phage or Prophage Related, putative alpha helix protein | |||||
| * | ? | NC_000913 | = 1978502 | 0 (0.000) | 31 (0.370) | 27/408 | NT | 100% | intergenic (‑305/+16) | flhD/insB1 | flagellar class II regulon transcriptional activator, with FlhC/IS1 transposase B |
| ? | NC_000913 | 1979279 = | 0 (0.000) | intergenic (‑64/‑474) | insA/uspC | IS1 repressor TnpA/universal stress protein | |||||
| * | ? | NC_000913 | 1979486 = | 0 (0.000) | 31 (0.350) | 25/424 | NT | 100% | intergenic (‑271/‑267) | insA/uspC | IS1 repressor TnpA/universal stress protein |
| ? | NC_000913 | 2101749 = | NA (NA) | intergenic (‑5/+146) | wbbL/insH1 | pseudogene, lipopolysaccharide biosynthesis protein/IS5 transposase and trans‑activator | |||||
| * | ? | NC_000913 | = 1979489 | 0 (0.000) | 85 (0.970) | 52/424 | NT | 100% | intergenic (‑274/‑264) | insA/uspC | IS1 repressor TnpA/universal stress protein |
| ? | NC_000913 | = 2290111 | NA (NA) | intergenic (‑32/+1) | insH1/yejO | IS5 transposase and trans‑activator/pseudogene, autotransporter outer membrane homology,putative transport, Not classified, putative ATP‑binding component of a transport system | |||||
| * | ? | NC_000913 | 2514275 = | NA (NA) | 19 (0.220) | 18/418 | NT | 16.9% | intergenic (+33/‑54) | nupC/insL1 | nucleoside (except guanosine) transporter/IS186 transposase |
| ? | NC_000913 | = 2536318 | 95 (1.080) | coding (487/510 nt) | crr | glucose‑specific enzyme IIA component of PTS | |||||
| * | ? | NC_000913 | = 2515612 | NA (NA) | 22 (0.250) | 20/420 | NT | 18.6% | intergenic (+171/+29) | insL1/yfeA | IS186 transposase/putative diguanylate cyclase |
| ? | NC_000913 | 2536308 = | 97 (1.100) | coding (477/510 nt) | crr | glucose‑specific enzyme IIA component of PTS | |||||
| * | ? | NC_000913 | 3592583 = | NA (NA) | 3 (0.040) | 3/396 | NT | 3.9% | noncoding (21/99 nt) | RIP258 (repetitive extragenic palindromic) element, contains 2 REP sequences and 1 IHF site | RIP258 (repetitive extragenic palindromic) element, contains 2 REP sequences and 1 IHF site |
| ? | NC_000913 | 3592647 = | 73 (0.890) | noncoding (85/99 nt) | RIP258 (repetitive extragenic palindromic) element, contains 2 REP sequences and 1 IHF site | RIP258 (repetitive extragenic palindromic) element, contains 2 REP sequences and 1 IHF site | |||||