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 | 12,435 | C→A | 9.7% | F91L (TTC→TTA) | dnaK → | chaperone Hsp70, with co‑chaperone DnaJ |
| RA | 33,456 | C→A | 21.8% | T880T (ACC→ACA) | carB → | carbamoyl‑phosphate synthase large subunit |
| RA | 37,250 | A→C | 19.0% | V192G (GTG→GGG) | caiC ← | putative crotonobetaine/carnitine‑CoA ligase |
| RA | 71,877 | A→G | 23.0% | E176G (GAG→GGG) | yabI → | DedA family inner membrane protein |
| RA | 75,091 | G→T | 36.0% | D130E (GAC→GAA) | thiB ← | thiamine/thiamine pyrophosphate/thiamine monophosphate ABC transporter periplasmic binding protein |
| RA | 134,602 | T→G | 14.3% | V72G (GTG→GGG) | yacL → | UPF0231 family protein |
| RA | 134,764 | A→G | 17.4% | intergenic (+14/+24) | yacL → / ← speD | UPF0231 family protein/S‑adenosylmethionine decarboxylase |
| RA | 134,775 | T→C | 16.4% | intergenic (+25/+13) | yacL → / ← speD | UPF0231 family protein/S‑adenosylmethionine decarboxylase |
| RA | 151,821 | A→G | 11.1% | T137T (ACT→ACC) | yadL ← | putative fimbrial‑like adhesin protein |
| RA | 159,258 | G→T | 20.5% | V285V (GTC→GTA) | gluQ ← | glutamyl‑Q tRNA(Asp) synthetase |
| RA | 194,997 | C→A | 11.1% | A32E (GCA→GAA) | ispU → | undecaprenyl pyrophosphate synthase |
| RA | 209,270 | T→G | 20.3% | V217G (GTG→GGG) | accA → | acetyl‑CoA carboxylase, carboxytransferase, alpha subunit |
| RA | 246,984 | T→C | 14.9% | A91A (GCT→GCC) | yafL → | putative lipoprotein and C40 family peptidase |
| MC JC | 257,908 | Δ776 bp | 100% | [crl] | [crl] | |
| RA | 266,024 | A→G | 14.3% | S22P (TCT→CCT) | ykfB ← | CP4‑6 prophage, uncharacterized protein |
| RA | 283,186 | A→G | 18.7% | *303W (TGA→TGG) | yagE → | 2‑keto‑3‑deoxy gluconate (KDG) aldolase, CP4‑6 prophage |
| RA | 300,999 | T→G | 15.7% | T297P (ACC→CCC) | paoB ← | PaoABC aldehyde oxidoreductase, FAD‑containing subunit |
| RA | 340,358 | A→G | 15.0% | E65G (GAG→GGG) | yahI → | carbamate kinase‑like protein |
| RA | 345,302 | C→A | 12.2% | intergenic (+311/‑102) | yahL → / → yahM | uncharacterized protein/uncharacterized protein |
| RA | 361,668 | C→T | 18.6% | E65K (GAA→AAA) | lacA ← | thiogalactoside acetyltransferase |
| RA | 397,917 | C→T | 12.3% | L16L (CTG→TTG) | yaiW → | microcin Bac7 uptake protein, outer membrane surface‑exposed lipoprotein |
| RA | 422,231 | A→T | 18.8% | I416F (ATC→TTC) | proY → | proline‑specific permease |
| RA | 429,749 | A→G | 14.0% | E82G (GAG→GGG) | secF → | SecYEG protein translocase auxillary subunit |
| RA | 433,649 | T→G | 41.1% | G65G (GGT→GGG) | ribD → | fused diaminohydroxyphosphoribosylaminopyrimidine deaminase and 5‑amino‑6‑(5‑phosphoribosylamino) uracil reductase |
| RA | 501,181 | A→C | 21.6% | T353P (ACT→CCT) | gsk → | inosine/guanosine kinase |
| RA | 623,980 | A→T | 18.9% | D177E (GAT→GAA) | fepB ← | ferrienterobactin ABC transporter periplasmic binding protein |
| RA | 647,210 | A→C | 22.2% | G100G (GGT→GGG) | citG ← | 2‑(5''‑triphosphoribosyl)‑3'‑dephosphocoenzyme‑A synthase |
| RA | 685,022 | G→C | 15.1% | R78R (CGC→CGG) | gltL ← | glutamate/aspartate ABC transporter ATPase |
| RA | 728,493 | C→A | 17.7% | M80I (ATG→ATT) | kdpA ← | potassium translocating ATPase, subunit A |
| RA | 735,298 | G→A | 13.0% | pseudogene (1166/1521 nt) | rhsO → | pseudogene, Rhs family |
| RA | 742,267 | T→C | 14.4% | E97G (GAG→GGG) | dtpD ← | dipeptide and tripeptide permease D |
| RA | 743,686 | C→G | 34.3% | R32G (CGA→GGA) | ybgJ → | putative allophanate hydrolase, subunit 1 |
| RA | 762,113 | T→C | 25.5% | S198P (TCC→CCC) | sucB → | dihydrolipoyltranssuccinase |
| RA | 770,523 | A→C | 16.8% | H849P (CAC→CCC) | mngB → | alpha‑mannosidase |
| RA | 830,865 | A→G | 21.6% | intergenic (‑222/‑7) | ybiH ← / → rhlE | DUF1956 domain‑containing tetR family putative transcriptional regulator/ATP‑dependent RNA helicase |
| RA | 842,815 | C→A | 17.2% | Q162K (CAA→AAA) | rlmF → | 23S rRNA m(6)A1618 methyltransferase, SAM‑dependent |
| RA | 846,743 | G→C | 13.4% | A126G (GCG→GGG) | glnP ← | glutamine transporter subunit |
| RA | 954,356 | C→A | 25.5% | L37L (CTG→CTT) | focA ← | formate channel |
| RA | 1,027,203 | T→G | 6.4% | T191P (ACA→CCA) | yccT ← | UPF0319 family protein |
| RA | 1,058,486 | T→C | 25.8% | S135P (TCG→CCG) | torC → | trimethylamine N‑oxide (TMAO) reductase I, cytochrome c‑type subunit |
| RA | 1,074,669 | C→G | 14.2% | A143G (GCG→GGG) | rutR → | rut operon transcriptional repressor for |
| RA | 1,132,071 | T→C | 10.2% | L73P (CTC→CCC) | flgD → | flagellar hook assembly protein |
| RA | 1,196,305 | C→T | 100% | R395C (CGT→TGT) | icd → | isocitrate dehydrogenase, e14 prophage attachment site, tellurite reductase |
| RA | 1,240,710 | A→G | 10.1% | H454H (CAT→CAC) | cvrA ← | putative cation/proton antiporter |
| RA | 1,242,879 | T→G | 17.5% | T68P (ACC→CCC) | ldcA ← | murein tetrapeptide carboxypeptidase, LD‑carboxypeptidase A |
| RA | 1,325,980 | A→T | 16.7% | Y412F (TAC→TTC) | yciQ → | enhancer of membrane protein expression, putative inner membrane protein |
| RA | 1,326,039 | A→T | 19.7% | M432L (ATG→TTG) | yciQ → | enhancer of membrane protein expression, putative inner membrane protein |
| RA | 1,383,720 | G→A | 15.4% | S81F (TCT→TTT) | ycjW ← | LacI family putative transcriptional repressor |
| RA | 1,466,393 | C→T | 11.3% | pseudogene (1002/2513 nt) | ydbA → | pseudogene, autotransporter homolog, interrupted by IS2 and IS30 |
| RA | 1,536,735 | A→C | 15.0% | V192G (GTG→GGG) | narW ← | nitrate reductase 2 (NRZ), delta subunit (assembly subunit) |
| RA | 1,579,748 | T→A | 13.0% | Y348F (TAT→TTT) | ydeM ← | putative YdeN‑specific sulfatase‑maturating enzyme |
| RA | 1,851,692 | T→G | 14.1% | V278G (GTG→GGG) | ansA → | cytoplasmic L‑asparaginase 1 |
| RA | 1,992,567 | T→C | 20.3% | E84G (GAG→GGG) | pgsA ← | phosphatidylglycerophosphate synthetase |
| RA | 2,054,830 | A→C | 16.2% | T396T (ACA→ACC) | shiA → | shikimate transporter |
| RA | 2,056,087 | A→G | 14.9% | S343G (AGC→GGC) | amn → | AMP nucleosidase |
| RA | 2,132,787 | A→C | 100% | I204S (ATC→AGC) | wcaA ← | putative glycosyl transferase |
| RA | 2,151,689 | G→T | 53.1% | intergenic (+43/+22) | yegJ → / ← yegK | uncharacterized protein/ser/thr phosphatase‑related protein |
| RA | 2,154,491 | T→C | 20.2% | L159P (CTC→CCC) | mdtA → | multidrug efflux system, subunit A |
| RA | 2,169,668 | A→C | 14.5% | intergenic (+57/+25) | yegS → / ← gatR | phosphatidylglycerol kinase, metal‑dependent/pseudogene, repressor for gat operon, interrupted by IS3, split galactitol utilization operon repressor, fragment 2, split galactitol utilization operon repressor, interrupted |
| RA | 2,209,351 | T→G | 13.4% | pseudogene (254/2001 nt) | yehQ → | pseudogene |
| RA | 2,489,485 | T→G | 25.2% | T234P (ACC→CCC) | yfdV ← | putative transporter |
| RA | 2,504,890 | A→C | 22.2% | V219G (GTG→GGG) | ypdE ← | aminopeptidase |
| RA | 2,507,675 | T→C | 12.4% | E73G (GAG→GGG) | fryC ← | putative enzyme IIC component of PTS |
| RA | 2,509,878 | A→C | 15.1% | D84A (GAC→GCC) | yfeO → | putative ion channel protein |
| RA | 2,545,453 | A→C | 14.8% | V52G (GTG→GGG) | murR ← | repressor for murPQ, MurNAc 6‑P inducible |
| RA | 2,590,063 | A→G | 16.8% | E824G (GAG→GGG) | acrD → | aminoglycoside/multidrug efflux system |
| RA | 2,606,031 | A→G | 20.0% | E408G (GAG→GGG) | hyfD → | hydrogenase 4, membrane subunit |
| RA | 2,659,473 | T→C | 15.8% | intergenic (‑8/+88) | hscB ← / ← iscA | HscA co‑chaperone, J domain‑containing protein Hsc56, IscU‑specific chaperone HscAB/FeS cluster assembly protein |
| RA | 2,676,479 | G→C | 14.0% | G115G (GGC→GGG) | yphD ← | putative sugar ABC transporter permease |
| RA | 2,682,535 | A→C | 20.2% | V70G (GTG→GGG) | yphG ← | DUF4380 domain‑containing TPR repeat protein |
| RA | 2,732,136 | A→C | 14.2% | V679G (GTG→GGG) | clpB ← | protein disaggregation chaperone |
| RA | 2,733,165 | A→C | 10.2% | V336G (GTG→GGG) | clpB ← | protein disaggregation chaperone |
| RA | 2,739,682 | T→C | 18.6% | E129G (GAG→GGG) | tyrA ← | fused chorismate mutase T/prephenate dehydrogenase |
| RA | 2,744,002 | T→C | 13.3% | L127P (CTC→CCC) | yfiB → | OM lipoprotein putative positive effector of YfiN activity |
| RA | 2,795,326 | T→G | 15.7% | V359G (GTA→GGA) | gabP → | gamma‑aminobutyrate transporter |
| RA | 2,820,818 | G→A | 7.5% | L398L (CTG→TTG) | alaS ← | alanyl‑tRNA synthetase |
| RA | 2,822,000 | T→C | 6.4% | S4G (AGC→GGC) | alaS ← | alanyl‑tRNA synthetase |
| RA | 2,829,257 | A→C | 9.3% | T71T (ACA→ACC) | srlR → | sorbitol‑inducible srl operon transcriptional repressor |
| RA | 2,935,067 | A→G | 13.9% | S279G (AGC→GGC) | fucP → | L‑fucose transporter |
| RA | 2,959,172 | A→C | 14.8% | G1085G (GGT→GGG) | recC ← | exonuclease V (RecBCD complex), gamma chain |
| RA | 2,969,477 | T→G | 20.5% | intergenic (‑502/‑183) | rppH ← / → mutH | RNA pyrophosphohydrolase/methyl‑directed mismatch repair protein |
| RA | 2,975,091 | T→G | 18.6% | T308P (ACT→CCT) | aas ← | fused 2‑acylglycerophospho‑ethanolamine acyl transferase/acyl‑acyl carrier protein synthetase |
| RA | 2,977,542 | A→C | 16.5% | T316P (ACT→CCT) | galR → | galactose‑inducible d‑galactose regulon transcriptional repressor, autorepressor |
| RA | 2,984,689 | T→C | 23.1% | E301G (GAG→GGG) | yqeF ← | short chain acyltransferase |
| RA | 3,027,729 | A→G | 18.5% | E204G (GAG→GGG) | ghxQ → | guanine/hypoxanthine permease, high affinity, guanine/hypoxanthine:H+ symporter |
| RA | 3,066,863 | A→T | 8.6% | Y103* (TAT→TAA) | ygfI ← | putative DNA‑binding transcriptional regulator |
| RA | 3,090,128 | A→C | 15.3% | T126P (ACC→CCC) | yggI → | Zn‑dependent metalloprotease‑related protein |
| RA | 3,145,641 | T→G | 14.6% | T207P (ACT→CCT) | hybO ← | hydrogenase 2, small subunit |
| RA | 3,199,950 | G→T | 14.2% | F338L (TTC→TTA) | ygiF ← | inorganic triphosphatase |
| RA | 3,265,358 | T→C | 18.4% | G223G (GGA→GGG) | tdcB ← | L‑threonine dehydratase, catabolic |
| RA | 3,293,765 | C→G | 19.5% | A123G (GCG→GGG) | lpoA → | OM lipoprotein stimulator of MrcA transpeptidase |
| RA | 3,329,771 | A→G | 18.0% | S271G (AGC→GGC) | dacB → | D‑alanyl‑D‑alanine carboxypeptidase |
| RA | 3,373,348 | A→G | 16.0% | L76P (CTC→CCC) | nanA ← | N‑acetylneuraminate lyase |
| RA | 3,373,356 | C→T | 11.5% | K73K (AAG→AAA) | nanA ← | N‑acetylneuraminate lyase |
| RA | 3,383,730 | A→C | 17.1% | G179G (GGT→GGG) | mdh ← | malate dehydrogenase, NAD(P)‑binding |
| RA | 3,398,069 | A→C | 11.8% | V103G (GTG→GGG) | yhdE ← | dTTP/UTP pyrophosphatase, m(5)UTP/m(5)CTP/pseudo‑UTP pyrophosphatase |
| RA | 3,416,444 | A→T | 15.5% | I472F (ATC→TTC) | acrF → | multidrug efflux system protein |
| RA | 3,471,154 | A→G | 15.6% | A58A (GCT→GCC) | tufA ← | translation elongation factor EF‑Tu 1 |
| RA | 3,479,687 | G→A | 15.6% | L307F (CTC→TTC) | kefB ← | potassium:proton antiporter |
| RA | 3,489,860 | A→G | 16.6% | S107P (TCC→CCC) | argD ← | bifunctional acetylornithine aminotransferase and succinyldiaminopimelate aminotransferase |
| RA | 3,523,991 | A→G | 15.0% | S375G (AGT→GGT) | mrcA → | penicillin‑binding protein 1a, murein transglycosylase and transpeptidase |
| JC | 3,525,971:1 | (ATCAGG)2→3 | 45.3% | coding (177/561 nt) | nudE ← | adenosine nucleotide hydrolase, Ap3A/Ap2A/ADP‑ribose/NADH hydrolase |
| RA | 3,532,593 | C→A | 21.2% | intergenic (‑156/‑223) | yhgE ← / → pck | DUF4153 family putative inner membrane protein/phosphoenolpyruvate carboxykinase [ATP] |
| RA | 3,551,915 | A→C | 23.5% | V186G (GTG→GGG) | malP ← | maltodextrin phosphorylase |
| RA | 3,561,718 | T→C | 16.8% | G35G (GGA→GGG) | glpE ← | thiosulfate:cyanide sulfurtransferase (rhodanese) |
| RA | 3,565,286 | T→G | 13.8% | H432P (CAC→CCC) | glgP ← | glycogen phosphorylase |
| RA | 3,565,290 | T→C | 11.2% | S431G (AGC→GGC) | glgP ← | glycogen phosphorylase |
| RA | 3,588,515 | A→C | 17.0% | V222G (GTC→GGC) | ugpC ← | sn‑glycerol‑3‑phosphate ABC transporter ATPase |
| RA | 3,680,184 | T→G | 18.7% | V256G (GTG→GGG) | kdgK → | 2‑dehydro‑3‑deoxygluconokinase |
| RA | 3,686,538 | T→C | 18.3% | S879G (AGC→GGC) | bcsC ← | cellulose synthase subunit |
| RA | 3,760,367 | G→T | 24.5% | D294E (GAC→GAA) | selA ← | selenocysteine synthase |
| RA | 3,760,381 | T→C | 32.2% | S290G (AGT→GGT) | selA ← | selenocysteine synthase |
| MC JC | 3,815,858 | Δ82 bp | 100% | [rph]–[rph] | [rph], [rph] | |
| RA | 3,817,476 | T→C | 13.3% | S268P (TCC→CCC) | yicC → | UPF0701 family protein |
| RA | 3,837,877 | A→G | 11.0% | E309G (GAG→GGG) | setC → | putative arabinose efflux transporter |
| RA | 3,838,905 | C→G | 10.9% | A220G (GCG→GGG) | yicL → | EamA family inner membrane putative transporter |
| RA | 3,850,795 | G→T | 15.1% | intergenic (‑70/+6) | uhpA ← / ← ilvN | response regulator in two‑component regulatory system wtih UhpB/acetolactate synthase 1 small subunit |
| RA | 3,854,897 | A→G | 21.5% | E326G (GAG→GGG) | emrD → | multidrug efflux system protein |
| RA | 3,875,520 | T→C | 17.9% | A28A (GCT→GCC) | yidX → | putative lipoprotein |
| RA | 3,894,500 | T→G | 14.3% | S207R (AGT→AGG) | yieE → | phosphopantetheinyl transferase superfamily protein |
| RA | 3,895,527 | G→C | 15.0% | A361G (GCG→GGG) | adeP ← | adenine permease, high affinity, adenine:H+ symporter |
| RA | 3,895,555 | T→C | 19.0% | M352V (ATG→GTG) | adeP ← | adenine permease, high affinity, adenine:H+ symporter |
| RA | 3,914,279 | G→A | 4.3% | C307C (TGC→TGT) | glmU ← | fused N‑acetyl glucosamine‑1‑phosphate uridyltransferase/glucosamine‑1‑phosphate acetyl transferase |
| RA | 3,929,739 | C→T | 9.5% | E452K (GAG→AAG) | ravA ← | hexameric AAA+ MoxR family ATPase, putative molecular chaperone |
| RA | 3,966,913 | A→C | 14.4% | S166S (TCA→TCC) | rho → | transcription termination factor |
| RA | 3,990,014 | T→C | 9.7% | E251G (GAG→GGG) | hemC ← | hydroxymethylbilane synthase |
| JC | 4,001,644 | Δ5 bp | 100% | coding (220‑224/951 nt) | corA → | magnesium/nickel/cobalt transporter |
| RA | 4,017,525 | T→C | 11.5% | L65P (CTC→CCC) | rmuC → | DNA recombination protein |
| RA | 4,087,250 | T→G | 19.8% | C84G (TGC→GGC) | yiiG → | DUF3829 family lipoprotein |
| RA | 4,107,633 | C→G | 8.5% | A28G (GCG→GGG) | pfkA → | 6‑phosphofructokinase I |
| RA | 4,124,034 | T→C | 12.1% | E141G (GAG→GGG) | cytR ← | Anti‑activator for CytR‑CRP nucleoside utilization regulon |
| RA | 4,130,929 | T→C | 17.7% | S366P (TCA→CCA) | metL → | Bifunctional aspartokinase/homoserine dehydrogenase 2 |
| RA | 4,146,771 | T→G | 13.8% | V172G (GTG→GGG) | pflC → | putative [formate‑C‑acetyltransferase 2]‑activating enzyme, pyruvate formate‑lyase 1‑activating enzyme |
| RA | 4,156,549 | T→C | 21.7% | S180P (TCC→CCC) | argB → | acetylglutamate kinase |
| RA | 4,161,862:1 | +C | 3.5% | coding (93/360 nt) | yijD → | DUF1422 family inner membrane protein |
| RA | 4,184,542 | C→A | 100% | P1100Q (CCG→CAG) | rpoB → | RNA polymerase, beta subunit |
| RA | 4,240,882 | A→C | 6.0% | F458V (TTT→GTT) | xylE ← | D‑xylose transporter |
| RA | 4,241,828 | T→A | 13.2% | L142F (TTA→TTT) | xylE ← | D‑xylose transporter |
| RA | 4,280,130 | A→G | 12.1% | E51G (GAG→GGG) | yjcE → | putative cation/proton antiporter |
| RA | 4,280,576 | A→G | 20.1% | S200G (AGC→GGC) | yjcE → | putative cation/proton antiporter |
| RA | 4,289,530 | T→G | 12.7% | V96G (GTG→GGG) | nrfB → | nitrite reductase, formate‑dependent, penta‑heme cytochrome c |
| RA | 4,316,228 | A→C | 22.0% | V331G (GTG→GGG) | phnM ← | ribophosphonate triphosphate hydrolase |
| RA | 4,336,952 | A→C | 21.9% | G27G (GGT→GGG) | adiC ← | arginine:agmatine antiporter |
| RA | 4,357,656 | T→G | 11.6% | T321T (ACA→ACC) | cadA ← | lysine decarboxylase, acid‑inducible |
| RA | 4,366,216 | T→G | 19.8% | T187P (ACT→CCT) | dcuA ← | C4‑dicarboxylate antiporter |
| RA | 4,368,894 | C→T | 18.3% | S77L (TCG→TTG) | fxsA → | suppressor of F exclusion of phage T7 |
| RA | 4,423,530 | T→G | 12.0% | G228G (GGT→GGG) | ulaE → | L‑xylulose 5‑phosphate 3‑epimerase |
| RA | 4,423,598 | A→G | 11.5% | E251G (GAG→GGG) | ulaE → | L‑xylulose 5‑phosphate 3‑epimerase |
| RA | 4,446,970 | T→G | 18.8% | V953G (GTG→GGG) | tamB → | translocation and assembly module for autotransporter export, inner membrane subunit |
| RA | 4,449,046 | T→G | 24.4% | intergenic (+3/+77) | chpB → / ← ppa | toxin of the ChpB‑ChpS toxin‑antitoxin system/inorganic pyrophosphatase |
| RA | 4,487,251 | C→T | 14.4% | L345F (CTC→TTC) | lptF → | lipopolysaccharide export ABC permease |
| RA | 4,530,175 | T→A | 13.1% | I24F (ATC→TTC) | sgcC ← | putative PTS system EIIC permease component |
| RA | 4,579,657 | A→C | 23.7% | V62G (GTG→GGG) | symE ← | toxic peptide regulated by antisense sRNA symR |
| RA | 4,619,955 | T→C | 15.6% | S118P (TCC→CCC) | deoB → | phosphopentomutase |
| RA | 4,628,142 | A→G | 10.2% | E276G (GAG→GGG) | nadR → | trifunctional protein: nicotinamide mononucleotide adenylyltransferase, ribosylnicotinamide kinase, transcriptional repressor |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 384786 | 385052 | 267 | 20 [19] | [18] 20 | yaiS/tauA | putative PIG‑L family deacetylase/taurine ABC transporter periplasmic binding protein |
| * | * | ÷ | NC_000913 | 583144 | 584602 | 1459 | 23 [17] | [19] 20 | appY | appY |
| * | * | ÷ | NC_000913 | 1212024 | 1212751 | 728 | 24 [17] | [19] 21 | [ycgX] | [ycgX] |
| * | * | ÷ | NC_000913 | 1544323 | 1545105 | 783 | 22 [16] | [19] 21 | yddK–[yddK] | yddK, [yddK] |
| * | * | ÷ | NC_000913 | 2103915 | 2104183 | 269 | 20 [18] | [18] 22 | wbbK | lipopolysaccharide biosynthesis protein |
| * | * | ÷ | NC_000913 | 2469145 | 2469868 | 724 | 20 [19] | [19] 20 | gtrS | serotype‑specific glucosyl transferase, CPS‑53 (KpLE1) prophage |
| * | * | ÷ | NC_000913 | 3796957 | 3797778 | 822 | 20 [19] | [18] 20 | waaL | O‑antigen ligase |
| * | * | ÷ | NC_000913 | 4233768 | 4235410 | 1643 | 21 [19] | [19] 21 | [pgi] | [pgi] |
| * | * | ÷ | NC_000913 | 4374223 | 4374421 | 199 | 21 [18] | [16] 22 | [yjeJ] | [yjeJ] |
| * | * | ÷ | NC_000913 | 4542554 | 4542923 | 370 | 22 [19] | [19] 20 | [fimE] | [fimE] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 257908 = | NA (NA) | 77 (1.010) | 53/438 | NT | 95.1% | 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 | 4 (0.050) | intergenic (‑117/‑488) | hns/tdk | global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase | |||||
| * | ? | NC_000913 | 279163 = | 75 (0.990) | 54 (0.710) | 3/438 | NT | 50.5% | intergenic (‑2/+15) | afuB/insB1 | pseudogene, CP4‑6 prophage, ferric iron ABC transporter permease gene fragment,Phage or Prophage Related/IS1 transposase B |
| ? | NC_000913 | = 2760084 | 31 (0.410) | coding (1102/1410 nt) | yfjI | CP4‑57 prophage, uncharacterized protein | |||||
| * | ? | NC_000913 | 458787 = | 8 (0.110) | 72 (0.960) | 48/432 | NT | 90.1% | 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 | 4 (0.050) | 78 (1.050) | 51/430 | NT | 95.2% | 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 | 1207790 = | 11 (0.140) | 63 (0.890) | 48/406 | NT | 82.2% | coding (290/630 nt) | stfP | e14 prophage, uncharacterized protein |
| ? | NC_000913 | 1209619 = | 17 (0.240) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage, side tail fiber protein fragment family,Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 10 (0.130) | 50 (0.710) | 40/406 | NT | 79.2% | coding (305/630 nt) | stfP | e14 prophage, uncharacterized protein |
| ? | NC_000913 | = 1209602 | 17 (0.240) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage, side tail fiber protein fragment family,Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1226035 | 96 (1.260) | 3 (0.040) | 3/434 | NT | 2.8% | coding (46/696 nt) | minC | inhibitor of FtsZ ring polymerization |
| ? | NC_000913 | = 1226307 | 114 (1.510) | intergenic (‑227/‑293) | minC/ycgJ | inhibitor of FtsZ ring polymerization/uncharacterized protein | |||||
| * | ? | NC_000913 | 1293032 = | 3 (0.040) | 77 (1.010) | 54/438 | NT | 96.2% | 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 | = 1299498 | 0 (0.000) | 22 (0.290) | 19/430 | NT | 100% | intergenic (+253/‑1684) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein |
| ? | NC_000913 | 1300698 = | 0 (0.000) | intergenic (+1453/‑484) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | = 1978502 | 0 (0.000) | 20 (0.270) | 17/422 | 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) | 30 (0.390) | 20/438 | 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) | 65 (0.850) | 41/438 | 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 | 3349875 = | 84 (1.100) | 3 (0.040) | 3/406 | NT | 3.6% | coding (583/654 nt) | elbB | isoprenoid biosynthesis protein with amidotransferase‑like domain |
| ? | NC_000913 | 3349891 = | 81 (1.150) | coding (567/654 nt) | elbB | isoprenoid biosynthesis protein with amidotransferase‑like domain | |||||
| * | ? | NC_000913 | = 4094332 | 77 (1.010) | 4 (0.050) | 3/432 | NT | 5.5% | noncoding (18/402 nt) | REP299 (repetitive extragenic palindromic) element, contains 9 REP sequences | REP299 (repetitive extragenic palindromic) element, contains 9 REP sequences |
| ? | NC_000913 | = 4094465 | 62 (0.830) | noncoding (151/402 nt) | REP299 (repetitive extragenic palindromic) element, contains 9 REP sequences | REP299 (repetitive extragenic palindromic) element, contains 9 REP sequences | |||||
| * | ? | NC_000913 | 4160851 = | 101 (1.330) | 5 (0.070) | 5/436 | NT | 4.7% | intergenic (‑62/‑272) | sthA/fabR | pyridine nucleotide transhydrogenase, soluble/transcriptional repressor of fabA and fabB |
| ? | NC_000913 | = 4499511 | NA (NA) | intergenic (+10/+83) | insD1/yjgX | IS2 transposase TnpB/pseudogene fragment | |||||