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 | freq | annotation | gene | description |
| RA | 99,399 | G→A | 15.4% | A333T (GCA→ACA) | ftsW → | putative lipid II flippase; integral membrane protein; FtsZ ring stabilizer |
| RA | 107,553 | (T)9→8 | 100% | intergenic (+79/‑152) | lpxC → / → secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| RA | 220,849 | (T)5→4 | 100% | coding (80/816 nt) | metQ ← | DL‑methionine transporter subunit |
| RA | 236,569 | C→T | 40.2% | A168V (GCC→GTC) | dnaQ → | DNA polymerase III epsilon subunit |
| MC JC | 257,908 | Δ776 bp | 100% | [crl] | [crl] | |
| RA | 349,717 | T→C | 56.4% | intergenic (+145/‑295) | prpB → / → prpC | 2‑methylisocitrate lyase/2‑methylcitrate synthase |
| RA | 379,603 | C→T | 52.8% | intergenic (‑32/+3) | frmA ← / ← frmR | alcohol dehydrogenase class III; glutathione‑dependent formaldehyde dehydrogenase/regulator protein that represses frmRAB operon |
| JC | 380,020 | (G)10→7 | 100% | intergenic (‑139/+47) | frmR ← / ← yaiO | regulator protein that represses frmRAB operon/outer membrane protein |
| RA | 380,022:1 | (G)10→11 | 100% | intergenic (‑141/+47) | frmR ← / ← yaiO | regulator protein that represses frmRAB operon/outer membrane protein |
| RA | 410,479 | A→G | 100% | S112S (TCA→TCG) | mak → | manno(fructo)kinase |
| RA | 419,385:1 | +T | 39.0% | intergenic (+201/‑206) | 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 | 426,471 | G→A | 37.6% | R112H (CGT→CAT) | tgt → | tRNA‑guanine transglycosylase |
| RA | 529,036 | A→G | 29.9% | pseudogene (397/491 nt) | ybbD → | pseudogene |
| RA | 715,849 | A→G | 32.6% | L146L (TTA→TTG) | ybfP → | lipoprotein |
| RA | 740,004 | G→A | 59.1% | M166I (ATG→ATA) | phr → | deoxyribodipyrimidine photolyase, FAD‑binding |
| RA | 953,802 | A→G | 100% | V222A (GTA→GCA) | focA ← | formate channel |
| RA | 1,143,641 | G→A | 100% | H243Y (CAT→TAT) | rne ← | endoribonuclease; RNA‑binding protein;RNA degradosome binding protein |
| RA | 1,156,112 | T→C | 62.4% | A117A (GCT→GCC) | holB → | DNA polymerase III, delta prime subunit |
| RA | 1,197,853 | T→C | 36.7% | N129D (AAT→GAT) | ymfE ← | e14 prophage; putative inner membrane protein |
| RA | 1,204,942 | T→C | 26.4% | pseudogene (539/1134 nt) | aaaE → | pseudogene, phage terminase protein A family, e14 prophage;Phage or Prophage Related |
| RA | 1,246,073 | C→T | 100% | G435D (GGC→GAC) | treA ← | periplasmic trehalase |
| RA | 1,356,549 | C→T | 21.5% | A188T (GCT→ACT) | sapA ← | antimicrobial peptide transport ABC transporter periplasmic binding protein |
| RA | 1,411,512 | G→A | 32.1% | A146V (GCG→GTG) | ttcA ← | tRNA s(2)C32 thioltransferase, iron sulfur cluster protein |
| RA | 1,489,197 | C→T | 100% | D322D (GAC→GAT) | aldA → | aldehyde dehydrogenase A, NAD‑linked |
| RA | 1,597,313:1 | (C)7→8 | 100% | pseudogene (675/3861 nt) | yneO ← | pseudogene, AidA homolog |
| RA | 1,666,466 | T→G | 16.9% | Y384* (TAT→TAG) | clcB → | H(+)/Cl(‑) exchange transporter |
| RA | 1,666,468 | A→T | 17.0% | Q385L (CAG→CTG) | clcB → | H(+)/Cl(‑) exchange transporter |
| RA | 1,666,470 | C→A | 16.4% | L386I (CTA→ATA) | clcB → | H(+)/Cl(‑) exchange transporter |
| RA | 1,698,281 | A→G | 31.1% | V300V (GTT→GTC) | malI ← | transcriptional repressor of Mal regulon |
| RA | 1,755,639 | G→A | 100% | intergenic (‑498/‑59) | ydhZ ← / → pykF | uncharacterized protein/pyruvate kinase I |
| RA | 1,864,763 | A→T | 15.6% | intergenic (+29/+19) | yeaD → / ← yeaE | D‑hexose‑6‑phosphate epimerase‑like protein/aldo‑keto reductase, methylglyoxal to acetol, NADPH‑dependent |
| RA | 1,864,768 | T→C | 16.0% | intergenic (+34/+14) | yeaD → / ← yeaE | D‑hexose‑6‑phosphate epimerase‑like protein/aldo‑keto reductase, methylglyoxal to acetol, NADPH‑dependent |
| RA | 1,868,250 | A→G | 100% | Y448C (TAC→TGC) | yeaG → | protein kinase, endogenous substrate unidentified; autokinase |
| RA | 1,903,571 | A→G | 36.1% | T164A (ACC→GCC) | manY → | mannose‑specific enzyme IIC component of PTS |
| MC JC | 1,978,503 | Δ776 bp | 100% | insB1–insA | insB1, insA | |
| JC JC | 1,979,486 | IS5 (+) +4 bp | 100% | intergenic (‑271/‑264) | insA ← / → uspC | IS1 repressor TnpA/universal stress protein |
| RA | 2,018,260 | (A)8→7 | 100% | coding (315/444 nt) | fliJ → | flagellar protein |
| RA | 2,087,983 | T→C | 28.3% | E92E (GAA→GAG) | yeeY ← | LysR family putative transcriptional regulator |
| RA | 2,127,198 | A→G | 31.8% | S373P (TCA→CCA) | gmd ← | GDP‑D‑mannose dehydratase, NAD(P)‑binding |
| RA | 2,147,466 | G→A | 21.1% | S25S (AGC→AGT) | alkA ← | 3‑methyl‑adenine DNA glycosylase II |
| RA | 2,173,363 | Δ2 bp | 100% | 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 | 2,202,110 | T→C | 55.8% | F611S (TTT→TCT) | yehI → | DUF4132 domain‑containing protein |
| RA | 2,257,774 | G→A | 22.5% | C198C (TGC→TGT) | psuG ← | pseudouridine 5'‑phosphate glycosidase |
| RA | 2,304,221 | C→T | 62.7% | A106V (GCC→GTC) | eco → | ecotin, a serine protease inhibitor |
| RA | 2,372,870 | T→C | 27.6% | V105A (GTG→GCG) | arnE → | undecaprenyl phosphate‑alpha‑L‑ara4N exporter; flippase ArnEF subunit |
| RA | 2,465,945 | G→A | 23.8% | V215V (GTG→GTA) | yfdC → | putative inner membrane protein |
| RA | 2,470,410 | (T)7→6 | 100% | coding (1280/1332 nt) | gtrS → | serotype‑specific glucosyl transferase, CPS‑53 (KpLE1) prophage |
| RA | 2,516,689 | T→C | 100% | T382A (ACG→GCG) | yfeA ← | putative diguanylate cyclase |
| RA | 2,553,210 | A→G | 36.2% | K287E (AAA→GAA) | amiA → | N‑acetylmuramoyl‑l‑alanine amidase I |
| RA | 2,614,141 | G→A | 27.9% | G70S (GGC→AGC) | focB → | putative formate transporter |
| RA | 2,652,855:1 | (G)6→7 | 100% | coding (362/846 nt) | sseA → | 3‑mercaptopyruvate sulfurtransferase |
| RA | 2,731,312 | G→A | 100% | intergenic (‑155/+288) | rrsG ← / ← clpB | 16S ribosomal RNA of rrnG operon/protein disaggregation chaperone |
| RA | 2,747,618 | C→T | 22.0% | V60I (GTT→ATT) | ffh ← | Signal Recognition Particle (SRP) component with 4.5S RNA (ffs) |
| RA | 2,749,038 | T→C | 23.1% | Y89H (TAC→CAC) | yfjD → | UPF0053 family inner membrane protein |
| RA | 2,764,373 | G→A | 28.4% | H261Y (CAC→TAC) | yfjL ← | CP4‑57 putative defective prophage, DUF4297/DUF1837 polymorphic toxin family protein |
| RA | 2,790,586 | T→C | 56.2% | L202P (CTG→CCG) | lhgO → | L‑2‑hydroxyglutarate oxidase |
| RA | 2,809,774:1 | (T)7→8 | 100% | coding (158/738 nt) | ygaZ → | putative L‑valine exporter, norvaline resistance protein |
| RA | 2,856,887 | C→T | 61.6% | intergenic (‑81/‑206) | ygbA ← / → mutS | uncharacterized protein/methyl‑directed mismatch repair protein |
| RA | 2,866,592:1 | +C | 100% | coding (960/993 nt) | rpoS ← | RNA polymerase, sigma S (sigma 38) factor |
| RA | 2,967,887 | G→A | 56.2% | A183V (GCC→GTC) | ptsP ← | PEP‑protein phosphotransferase enzyme I; GAF domain containing protein |
| RA | 3,007,187 | A→T | 65.1% | D309V (GAC→GTC) | ygeW → | putative carbamoyltransferase |
| RA | 3,008,075 | A→G | 100% | D189G (GAC→GGC) | ygeX → | 2,3‑diaminopropionate ammonia lyase, PLP‑dependent |
| RA | 3,182,712 | G→A | 40.0% | A55T (GCC→ACC) | zupT → | zinc transporter |
| RA | 3,194,516 | A→G | 100% | K551K (AAA→AAG) | yqiK → | PHB family membrane protein, function unknown |
| RA | 3,249,628 | G→A | 54.4% | G85D (GGC→GAC) | yqjD → | membrane‑anchored ribosome‑binding protein |
| RA | 3,298,809 | A→G | 65.4% | V13A (GTG→GCG) | yraR ← | putative nucleoside‑diphosphate‑sugar epimerase |
| RA | 3,352,673 | T→C | 100% | E118G (GAA→GGA) | arcB ← | aerobic respiration control sensor histidine protein kinase, cognate to two‑component response regulators ArcA and RssB |
| RA | 3,379,266:1 | (C)7→8 | 100% | coding (732/1128 nt) | zapE ← | divisome ATPase |
| RA | 3,411,299 | T→C | 100% | V10A (GTA→GCA) | fis → | global DNA‑binding transcriptional dual regulator |
| RA | 3,512,561 | Δ1 bp | 34.0% | intergenic (‑217/+73) | yhfZ ← / ← trpS | putative DNA‑binding transcriptional regulator/tryptophanyl‑tRNA synthetase |
| RA | 3,520,513 | T→C | 58.4% | D64G (GAT→GGT) | hofQ ← | DNA catabolic putative fimbrial transporter |
| RA | 3,542,093 | G→A | 37.7% | V563M (GTG→ATG) | feoB → | ferrous iron transporter protein B and GTP‑binding protein; membrane protein |
| RA | 3,560,455:1 | +G | 100% | 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 | 3,572,318 | T→C | 30.6% | E395E (GAA→GAG) | glgB ← | 1,4‑alpha‑glucan branching enzyme |
| MC JC | 3,582,206 | Δ1,222 bp | 100% | IS1‑mediated | [yhhZ]–yrhA | [yhhZ], yrhA |
| RA | 3,618,765 | T→C | 25.3% | Y60H (TAT→CAT) | nikR → | transcriptional repressor, Ni‑binding |
| RA | 3,646,678 | G→A | 57.0% | G127D (GGC→GAC) | gor → | glutathione oxidoreductase |
| RA | 3,648,144 | (T)7→6 | 100% | intergenic (‑356/‑384) | dinQ ← / → arsR | UV‑inducible membrane toxin, DinQ‑AgrB type I toxin‑antitoxin system/arsenical resistance operon transcriptional repressor; autorepressor |
| RA | 3,705,970 | G→A | 16.1% | intergenic (‑180/+128) | dppB ← / ← dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| RA | 3,705,971 | C→A | 16.0% | intergenic (‑181/+127) | dppB ← / ← dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| RA | 3,705,984 | T→G | 21.2% | intergenic (‑194/+114) | dppB ← / ← dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| RA | 3,705,985 | T→C | 21.2% | intergenic (‑195/+113) | dppB ← / ← dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| MC JC | 3,815,859 | Δ82 bp | 100% | [rph]–[rph] | [rph], [rph] | |
| RA | 3,851,014 | C→T | 41.9% | G27S (GGC→AGC) | ilvN ← | acetolactate synthase 1 small subunit |
| RA | 3,903,585 | G→A | 53.1% | G39G (GGC→GGT) | bglB ← | cryptic phospho‑beta‑glucosidase B |
| RA | 3,951,559:1 | +A | 59.6% | pseudogene (18/663 nt) | ilvG → | pseudogene, acetolactate synthase 2 large subunit, valine‑insensitive; acetolactate synthase II, large subunit, cryptic, interrupted |
| RA | 3,952,380 | G→A | 35.9% | L60L (CTG→CTA) | ilvM → | acetolactate synthase 2 small subunit |
| RA | 3,952,569 | C→T | 39.8% | A29V (GCG→GTG) | ilvE → | branched‑chain amino acid aminotransferase |
| RA | 4,121,879 | Δ1 bp | 15.2% | coding (409/531 nt) | hslV ← | peptidase component of the HslUV protease |
| RA | 4,121,880 | Δ1 bp | 15.2% | coding (408/531 nt) | hslV ← | peptidase component of the HslUV protease |
| RA | 4,128,197 | T→C | 59.3% | T67A (ACC→GCC) | metJ ← | transcriptional repressor, S‑adenosylmethionine‑binding |
| RA | 4,214,649 | A→T | 61.0% | I124F (ATC→TTC) | metA → | homoserine O‑transsuccinylase |
| RA | 4,214,964 | A→G | 32.6% | I229V (ATT→GTT) | metA → | homoserine O‑transsuccinylase |
| RA | 4,243,370 | C→T | 67.7% | L49L (CTG→CTA) | malG ← | maltose transporter subunit |
| RA | 4,295,744 | G→A | 59.7% | A422T (GCT→ACT) | gltP → | glutamate/aspartate:proton symporter |
| RA | 4,296,060 | C→T | 100% | intergenic (+266/+376) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,296,381:1 | +GC | 100% | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,326,047 | C→T | 61.7% | intergenic (‑306/+352) | yjdN ← / ← yjdM | metalloprotein superfamily protein/zinc‑ribbon family protein |
| RA | 4,337,024 | G→A | 100% | S3L (TCG→TTG) | adiC ← | arginine:agmatine antiporter |
| RA | 4,397,557 | G→T | 100% | G49V (GGT→GTT) | mutL → | methyl‑directed mismatch repair protein |
| RA | 4,410,053 | (T)9→8 | 100% | intergenic (+47/‑80) | rlmB → / → yjfI | 23S rRNA mG2251 2'‑O‑ribose methyltransferase, SAM‑dependent/DUF2170 family protein |
| RA | 4,494,883:1 | (A)7→8 | 100% | coding (261/564 nt) | idnK → | D‑gluconate kinase, thermosensitive |
| RA | 4,551,608 | G→A | 46.5% | intergenic (‑312/‑28) | gntP ← / → uxuA | fructuronate transporter/mannonate hydrolase |
| RA | 4,573,528 | A→G | 100% | pseudogene (1115/1503 nt) | yjiT → | pseudogene |
| RA | 4,638,193:1 | (C)6→7 | 100% | coding (16/1353 nt) | creD → | inner membrane protein |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3423821–3424234 | 3424599–3424238 | 5–779 | 74 [68] | [69] 72 | [rrlD] | [rrlD] |
| * | * | ÷ | NC_000913 | 3621162–3622298 | 3622643–3622421 | 124–1482 | 70 [64] | [69] 70 | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 72136 = | NA (NA) | 6 (0.050) | 5/164 | NT | NA | noncoding (1/85 nt) | REP7 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP7 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | 72169 = | NA (NA) | noncoding (34/85 nt) | REP7 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP7 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | = 72190 | NA (NA) | 8 (0.070) | 7/164 | NT | NA | noncoding (55/85 nt) | REP7 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP7 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | = 72220 | NA (NA) | noncoding (85/85 nt) | REP7 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP7 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | 224059 = | NA (NA) | 40 (0.340) | 16/164 | NT | NA | noncoding (289/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 224082 = | NA (NA) | noncoding (312/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | 225078 = | NA (NA) | 32 (0.270) | 9/164 | NT | NA | noncoding (1308/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 225100 = | NA (NA) | noncoding (1330/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | 225154 = | NA (NA) | 22 (0.180) | 11/168 | NT | NA | noncoding (1384/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 225176 = | NA (NA) | noncoding (1406/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | 225277 = | NA (NA) | 13 (0.110) | 6/168 | NT | NA | noncoding (1507/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 225299 = | NA (NA) | noncoding (1529/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 225281 | NA (NA) | 28 (0.230) | 14/168 | NT | NA | noncoding (1511/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 225293 | NA (NA) | noncoding (1523/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 225998 | NA (NA) | 12 (0.100) | 8/170 | NT | NA | noncoding (240/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 226015 | NA (NA) | noncoding (257/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | 226704 = | NA (NA) | 7 (0.060) | 4/170 | NT | NA | noncoding (946/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 226730 = | NA (NA) | noncoding (972/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 227444 | NA (NA) | 17 (0.140) | 11/168 | NT | NA | noncoding (1686/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 227459 | NA (NA) | noncoding (1701/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 228108 | NA (NA) | 32 (0.260) | 15/170 | NT | NA | noncoding (2350/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 228124 | NA (NA) | noncoding (2366/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 228224 | NA (NA) | 13 (0.110) | 8/166 | NT | NA | noncoding (2466/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 228241 | NA (NA) | noncoding (2483/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | 274347 = | NA (NA) | 12 (0.100) | 9/164 | NT | NA | noncoding (803/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274410 = | NA (NA) | noncoding (740/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 274384 = | NA (NA) | 9 (0.070) | 5/172 | NT | NA | noncoding (766/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274422 = | NA (NA) | noncoding (728/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 274620 = | NA (NA) | 17 (0.150) | 9/160 | NT | NA | noncoding (530/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274663 = | NA (NA) | noncoding (487/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 275007 | NA (NA) | 18 (0.150) | 10/172 | NT | NA | noncoding (143/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 275025 | NA (NA) | noncoding (125/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 279841 | NA (NA) | 15 (0.120) | 8/168 | NT | NA | noncoding (90/768 nt) | IS1 | repeat region |
| ? | NC_000913 | = 279852 | NA (NA) | noncoding (79/768 nt) | IS1 | repeat region | |||||
| * | ? | NC_000913 | = 315572 | NA (NA) | 11 (0.100) | 6/158 | NT | NA | noncoding (344/1255 nt) | IS3 | repeat region |
| ? | NC_000913 | = 315588 | NA (NA) | noncoding (360/1255 nt) | IS3 | repeat region | |||||
| * | ? | NC_000913 | 315642 = | NA (NA) | 12 (0.100) | 9/168 | NT | NA | noncoding (414/1255 nt) | IS3 | repeat region |
| ? | NC_000913 | 315671 = | NA (NA) | noncoding (443/1255 nt) | IS3 | repeat region | |||||
| * | ? | NC_000913 | = 315646 | NA (NA) | 15 (0.120) | 10/168 | NT | NA | noncoding (418/1255 nt) | IS3 | repeat region |
| ? | NC_000913 | = 315665 | NA (NA) | noncoding (437/1255 nt) | IS3 | repeat region | |||||
| * | ? | NC_000913 | 349605 = | NA (NA) | 8 (0.070) | 4/164 | NT | NA | noncoding (1/365 nt) | REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences | REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences |
| ? | NC_000913 | 349637 = | NA (NA) | noncoding (33/365 nt) | REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences | REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences | |||||
| * | ? | NC_000913 | 381292 = | NA (NA) | 13 (0.110) | 19/160 | NT | NA | noncoding (33/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 381312 = | NA (NA) | noncoding (53/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 381663 = | NA (NA) | 13 (0.110) | 6/164 | NT | NA | noncoding (404/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 381703 = | NA (NA) | noncoding (444/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 381669 | NA (NA) | 19 (0.160) | 12/164 | NT | NA | noncoding (410/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 381695 | NA (NA) | noncoding (436/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 381910 | NA (NA) | 26 (0.220) | 11/166 | NT | NA | noncoding (651/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 381923 | NA (NA) | noncoding (664/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 382282 = | NA (NA) | 15 (0.130) | 12/166 | NT | NA | noncoding (1023/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 382313 = | NA (NA) | noncoding (1054/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 707978 | NA (NA) | 5 (0.050) +GGATTGTTTGCTGT |
5/150 | NT | NA | intergenic (+221/‑356) | glnS/chiP | glutamyl‑tRNA synthetase/chitoporin, uptake of chitosugars |
| ? | NC_000913 | = 3269824 | NA (NA) | intergenic (+222/+801) | yhaC/garK | pentapetide repeats‑related protein/glycerate kinase I | |||||
| * | ? | NC_000913 | 729981 = | NA (NA) | 10 (0.080) | 11/168 | NT | NA | coding (399/4194 nt) | rhsC | Rhs protein with putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | 730006 = | NA (NA) | coding (424/4194 nt) | rhsC | Rhs protein with putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | 937227 = | NA (NA) | 7 (0.060) | 5/162 | NT | NA | noncoding (4/36 nt) | REP85 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP85 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | 937261 = | NA (NA) | intergenic (+48/‑111) | ftsK/lolA | DNA translocase at septal ring sorting daughter chromsomes/lipoprotein chaperone | |||||
| * | ? | NC_000913 | 1207790 = | 79 (0.620) | 15 (0.140) | 14/146 | NT | 17.2% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 80 (0.760) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 77 (0.600) | 18 (0.170) | 16/146 | NT | 20.1% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 80 (0.760) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 122 (1.000) | 76/170 | 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 | 2133432 = | NA (NA) | 8 (0.070) | 6/164 | NT | NA | noncoding (1/34 nt) | REP145 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP145 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | 2133462 = | NA (NA) | noncoding (31/34 nt) | REP145 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP145 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||
| * | ? | NC_000913 | = 2539674 | NA (NA) | 7 (0.060) | 7/164 | NT | NA | intergenic (‑91/+43) | cysM/cysA | cysteine synthase B (O‑acetylserine sulfhydrolase B)/sulfate/thiosulfate transporter subunit |
| ? | NC_000913 | = 2539688 | NA (NA) | intergenic (‑105/+29) | cysM/cysA | cysteine synthase B (O‑acetylserine sulfhydrolase B)/sulfate/thiosulfate transporter subunit | |||||
| * | ? | NC_000913 | 2662311 = | NA (NA) | 10 (0.080) | 9/168 | NT | NA | noncoding (3/266 nt) | REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences | REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences |
| ? | NC_000913 | 2662337 = | NA (NA) | noncoding (29/266 nt) | REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences | REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences | |||||
| * | ? | NC_000913 | 2727891 = | NA (NA) | 38 (0.320) | 15/166 | NT | NA | noncoding (1294/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| ? | NC_000913 | 2727910 = | NA (NA) | noncoding (1275/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | 2728214 = | NA (NA) | 24 (0.200) | 10/170 | NT | NA | noncoding (971/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| ? | NC_000913 | 2728240 = | NA (NA) | noncoding (945/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | = 2794135 | NA (NA) | 11 (0.090) | 8/168 | NT | NA | noncoding (108/136 nt) | REP191 (repetitive extragenic palindromic) element; contains 3 REP sequences | REP191 (repetitive extragenic palindromic) element; contains 3 REP sequences |
| ? | NC_000913 | = 2794163 | NA (NA) | noncoding (136/136 nt) | REP191 (repetitive extragenic palindromic) element; contains 3 REP sequences | REP191 (repetitive extragenic palindromic) element; contains 3 REP sequences | |||||
| * | ? | NC_000913 | = 2837464 | NA (NA) | 7 (0.060) | 7/162 | NT | NA | intergenic (‑39/+114) | hypF/hydN | carbamoyl phosphate phosphatase and [NiFe] hydrogenase maturation protein/formate dehydrogenase‑H, [4Fe‑4S] ferredoxin subunit |
| ? | NC_000913 | = 2837491 | NA (NA) | noncoding (27/27 nt) | REP196 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP196 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||
| * | ? | NC_000913 | 2837465 = | NA (NA) | 10 (0.090) | 5/162 | NT | NA | noncoding (1/27 nt) | REP196 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP196 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | 2837492 = | NA (NA) | intergenic (‑67/+86) | hypF/hydN | carbamoyl phosphate phosphatase and [NiFe] hydrogenase maturation protein/formate dehydrogenase‑H, [4Fe‑4S] ferredoxin subunit | |||||
| * | ? | NC_000913 | 3234638 = | NA (NA) | 6 (0.050) | 5/164 | NT | NA | noncoding (1/86 nt) | REP233 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP233 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | 3234671 = | NA (NA) | noncoding (34/86 nt) | REP233 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP233 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | 3255217 = | NA (NA) | 5 (0.040) | 4/164 | NT | NA | noncoding (1/103 nt) | REP236 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP236 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | 3255247 = | NA (NA) | noncoding (31/103 nt) | REP236 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP236 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | = 3336922 | NA (NA) | 11 (0.090) | 8/166 | NT | NA | noncoding (4/34 nt) | REP244 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP244 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | = 3336952 | NA (NA) | noncoding (34/34 nt) | REP244 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP244 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||
| * | ? | NC_000913 | = 3423822 | 0 (0.000) | 21 (0.180) | 8/166 | NT | 100% | intergenic (‑35/+58) | rrfD/rrlD | 5S ribosomal RNA of rrnD operon/23S ribosomal RNA of rrnD operon |
| ? | NC_000913 | 4040506 = | NA (NA) | intergenic (+83/‑11) | rrlA/rrfA | 23S ribosomal RNA of rrnA operon/5S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | 3470277 = | NA (NA) | 11 (0.090) | 6/164 | NT | NA | coding (1053/1185 nt) | tufA | translation elongation factor EF‑Tu 1 |
| ? | NC_000913 | 3470311 = | NA (NA) | coding (1019/1185 nt) | tufA | translation elongation factor EF‑Tu 1 | |||||
| * | ? | NC_000913 | 3539757 = | NA (NA) | 6 (0.050) | 4/160 | NT | NA | noncoding (12/34 nt) | REP252 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP252 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | 3539792 = | NA (NA) | intergenic (+86/‑371) | yhgF/feoA | putative transcriptional accessory protein/ferrous iron transporter, protein A | |||||
| * | ? | NC_000913 | = 3620220 | NA (NA) | 11 (0.090) | 7/166 | NT | 100% | coding (1029/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | = 3620255 | 0 (0.000) | coding (1064/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | = 3620614 | NA (NA) | 11 (0.090) | 7/166 | NT | 100% | coding (1423/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | = 3620635 | 0 (0.000) | coding (1444/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | 3622466 = | NA (NA) | 13 (0.110) | 9/170 | NT | 100% | coding (3275/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | 3622497 = | 0 (0.000) | coding (3306/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | = 3650792 | NA (NA) | 7 (0.060) | 7/166 | NT | NA | noncoding (81/100 nt) | RIP262 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP262 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913 | = 3650805 | NA (NA) | noncoding (94/100 nt) | RIP262 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP262 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | = 3674441 | NA (NA) | 10 (0.080) | 6/164 | NT | NA | noncoding (61/93 nt) | REP263 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP263 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | = 3674473 | NA (NA) | noncoding (93/93 nt) | REP263 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP263 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | 3754860 = | NA (NA) | 11 (0.090) | 7/164 | NT | NA | noncoding (1/82 nt) | REP270 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP270 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | 3754890 = | NA (NA) | noncoding (31/82 nt) | REP270 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP270 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | 3781698 = | NA (NA) | 5 (0.040) | 4/164 | NT | NA | noncoding (1/29 nt) | REP273 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP273 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | 3781727 = | NA (NA) | intergenic (+39/+14) | trmL/cysE | tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent/serine acetyltransferase | |||||
| * | ? | NC_000913 | 3898629 = | NA (NA) | 11 (0.090) | 8/162 | NT | NA | intergenic (+20/+42) | cbrC/yieK | UPF0167 family protein/putative 6‑phosphogluconolactonase |
| ? | NC_000913 | 3898659 = | NA (NA) | intergenic (+50/+12) | cbrC/yieK | UPF0167 family protein/putative 6‑phosphogluconolactonase | |||||
| * | ? | NC_000913 | = 3898636 | NA (NA) | 6 (0.050) | 5/162 | NT | NA | noncoding (6/26 nt) | REP282 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP282 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | = 3898650 | NA (NA) | noncoding (20/26 nt) | REP282 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP282 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||
| * | ? | NC_000913 | = 3943666 | NA (NA) | 13 (0.110) | 4/170 | NT | NA | intergenic (+156/‑38) | gltU/rrlC | tRNA‑Glu/23S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 3943696 | NA (NA) | intergenic (+186/‑8) | gltU/rrlC | tRNA‑Glu/23S ribosomal RNA of rrnC operon | |||||
| * | ? | NC_000913 | = 3962703 | NA (NA) | 6 (0.050) | 5/166 | NT | NA | noncoding (4/36 nt) | REP286 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP286 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | = 3962735 | NA (NA) | noncoding (36/36 nt) | REP286 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP286 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||
| * | ? | NC_000913 | = 4035360 | NA (NA) | 16 (0.130) | 8/166 | NT | 100% | intergenic (+207/‑171) | hemG/rrsA | protoporphyrin oxidase, flavoprotein/16S ribosomal RNA of rrnA operon |
| ? | NC_000913 | = 4035384 | 0 (0.000) | intergenic (+231/‑147) | hemG/rrsA | protoporphyrin oxidase, flavoprotein/16S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | 4094320 = | NA (NA) | 9 (0.080) | 5/164 | NT | NA | noncoding (5/402 nt) | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | NC_000913 | 4094350 = | NA (NA) | noncoding (35/402 nt) | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | |||||
| * | ? | NC_000913 | = 4148478 | NA (NA) | 8 (0.070) | 6/164 | NT | NA | noncoding (49/82 nt) | REP308 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP308 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | = 4148511 | NA (NA) | noncoding (82/82 nt) | REP308 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP308 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | = 4171625 | 0 (0.000) | 59 (0.490) | 13/166 | NT | 100% | intergenic (+81/‑12) | rrlB/rrfB | 23S ribosomal RNA of rrnB operon/5S ribosomal RNA of rrnB operon |
| ? | NC_000913 | = 4213004 | NA (NA) | intergenic (+58/‑36) | rrlE/rrfE | 23S ribosomal RNA of rrnE operon/5S ribosomal RNA of rrnE operon | |||||
| * | ? | NC_000913 | 4325861 = | 215 (1.680) | 116 (1.250) | 68/130 | NT | 47.7% | noncoding (60/583 nt) | REP325 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP325 (repetitive extragenic palindromic) element; contains 12 REP sequences |
| ? | NC_000913 | = 4374507 | 98 (1.050) | noncoding (10/99 nt) | RIP329 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP329 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | 4332016 = | NA (NA) | 7 (0.060) | 5/160 | NT | NA | noncoding (3/32 nt) | REP326 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP326 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | 4332047 = | NA (NA) | intergenic (+43/‑69) | proP/pmrR | proline/glycine betaine transporter/putative membrane‑bound BasS regulator | |||||
| * | ? | NC_000913 | = 4415961 | NA (NA) | 7 (0.060) | 7/166 | NT | NA | noncoding (4/34 nt) | REP332 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP332 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | = 4415991 | NA (NA) | noncoding (34/34 nt) | REP332 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP332 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||