mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | position | mutation | freq | annotation | gene | description |
| RA | 127,605 | A→C | 5.2% | intergenic (+18/‑307) | aceF → / → lpd | pyruvate dehydrogenase, dihydrolipoyltransacetylase component E2/dihydrolipoyl dehydrogenase; E3 component of pyruvate and 2‑oxoglutarate dehydrogenases complexes; glycine cleavage system L protein; dihydrolipoamide dehydrogenase |
| RA | 164,581 | A→C | 17.6% | intergenic (+47/‑149) | hrpB → / → mrcB | putative ATP‑dependent helicase/fused glycosyl transferase and transpeptidase |
| RA | 225,466 | C→G | 5.8% | intergenic (+9/‑34) | ileV → / → alaV | tRNA‑Ile/tRNA‑Ala |
| RA | 238,507 | G→T | 7.1% | S77* (TCA→TAA) | ykfM ← | lethality reduction protein, putative inner membrane protein |
| RA | 238,523 | G→T | 7.1% | L72I (CTT→ATT) | ykfM ← | lethality reduction protein, putative inner membrane protein |
| RA | 238,532 | C→A | 8.5% | V69L (GTA→TTA) | ykfM ← | lethality reduction protein, putative inner membrane protein |
| RA | 238,535 | G→T | 6.6% | H68N (CAT→AAT) | ykfM ← | lethality reduction protein, putative inner membrane protein |
| MC JC | 257,908 | Δ776 bp | 100% | [crl] | [crl] | |
| RA | 281,965 | A→T | 7.4% | W7R (TGG→AGG) | yagA ← | CP4‑6 prophage; putative DNA‑binding transcriptional regulator |
| RA | 380,005 | A→C | 6.8% | intergenic (‑124/+64) | frmR ← / ← yaiO | regulator protein that represses frmRAB operon/outer membrane protein |
| RA | 580,727 | G→T | 8.2% | intergenic (‑282/‑107) | ylcI ← / → nohD | DUF3950 family protein, DLP12 prophage/DLP12 prophage; DNA packaging protein |
| RA | 596,072 | A→C | 6.9% | Q158P (CAG→CCG) | cusC → | copper/silver efflux system, outer membrane component |
| RA | 624,598 | A→T | 13.5% | intergenic (‑88/‑287) | fepB ← / → entC | ferrienterobactin ABC transporter periplasmic binding protein/isochorismate synthase 1 |
| RA | 624,610 | A→T | 7.5% | intergenic (‑100/‑275) | fepB ← / → entC | ferrienterobactin ABC transporter periplasmic binding protein/isochorismate synthase 1 |
| RA | 639,560 | G→C | 11.1% | intergenic (+52/‑193) | ahpC → / → ahpF | alkyl hydroperoxide reductase, C22 subunit/alkyl hydroperoxide reductase, F52a subunit, FAD/NAD(P)‑binding |
| RA | 708,015 | T→A | 7.2% | intergenic (+258/‑319) | glnS → / → chiP | glutamyl‑tRNA synthetase/chitoporin, uptake of chitosugars |
| RA | 756,331 | G→T | 7.8% | G142V (GGT→GTT) | sdhA → | succinate dehydrogenase, flavoprotein subunit |
| RA | 756,886 | T→G | 90.2% | L327R (CTG→CGG) | sdhA → | succinate dehydrogenase, flavoprotein subunit |
| RA | 777,208 | A→C | 6.5% | K289N (AAA→AAC) | tolA → | membrane anchored protein in TolA‑TolQ‑TolR complex |
| RA | 873,380 | A→T | 6.2% | S134S (TCA→TCT) | yliE → | putative membrane‑anchored cyclic‑di‑GMP phosphodiesterase |
| RA | 1,174,077 | G→A | 6.4% | intergenic (‑113/+15) | mfd ← / ← ycfT | transcription‑repair coupling factor/inner membrane protein |
| RA | 1,174,080 | T→C | 6.3% | intergenic (‑116/+12) | mfd ← / ← ycfT | transcription‑repair coupling factor/inner membrane protein |
| RA | 1,286,965 | A→T | 6.7% | intergenic (+439/+101) | narI → / ← rttR | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/rtT sRNA, processed from tyrT transcript |
| RA | 1,286,983 | A→T | 5.3% | intergenic (+457/+83) | narI → / ← rttR | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/rtT sRNA, processed from tyrT transcript |
| RA | 1,287,149 | G→A | 6.0% | noncoding (88/171 nt) R10* (CGA→TGA) |
rttR ← tpr ← |
rtT sRNA, processed from tyrT transcript protamine‑like protein |
| RA | 1,311,830 | A→G | 5.3% | intergenic (+22/+18) | tonB → / ← yciA | membrane spanning protein in TonB‑ExbB‑ExbD transport complex/acyl‑CoA esterase |
| RA | 1,311,831 | C→T | 5.3% | intergenic (+23/+17) | tonB → / ← yciA | membrane spanning protein in TonB‑ExbB‑ExbD transport complex/acyl‑CoA esterase |
| RA | 1,351,228 | G→C | 8.5% | intergenic (‑189/+179) | fabI ← / ← ycjD | enoyl‑[acyl‑carrier‑protein] reductase, NADH‑dependent/DUF559 family endonuclease‑related protein |
| RA | 1,466,201 | T→C | 5.5% | pseudogene (810/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,466,210 | G→A | 5.5% | pseudogene (819/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,466,345 | T→C | 6.1% | pseudogene (954/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,466,604 | G→A | 9.0% | pseudogene (1213/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,466,630 | G→C | 6.4% | pseudogene (1239/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,466,639 | C→T | 7.1% | pseudogene (1248/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,708,709 | T→A | 6.4% | R597R (CGT→CGA) | rsxC → | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| RA | 1,708,805 | T→A | 7.8% | R629R (CGT→CGA) | rsxC → | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| RA | 1,708,814 | A→T | 6.0% | A632A (GCA→GCT) | rsxC → | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| RA | 1,720,364 | G→T | 8.3% | intergenic (+21/+26) | slyB → / ← slyA | outer membrane lipoprotein/global transcriptional regulator |
| RA | 1,864,763 | A→T | 5.9% | 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 | 6.2% | intergenic (+34/+14) | yeaD → / ← yeaE | D‑hexose‑6‑phosphate epimerase‑like protein/aldo‑keto reductase, methylglyoxal to acetol, NADPH‑dependent |
| 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 | 2,173,361 | Δ2 bp | 100% | pseudogene (1‑2/442 nt) | gatC ← | pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC |
| RA | 2,177,228 | C→A | 11.0% | intergenic (‑24/+284) | gatY ← / ← fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| RA | 2,177,234 | C→A | 10.3% | intergenic (‑30/+278) | gatY ← / ← fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| RA | 2,177,245 | G→T | 10.1% | intergenic (‑41/+267) | gatY ← / ← fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| RA | 2,229,177 | A→C | 14.2% | intergenic (+112/+261) | yohP → / ← dusC | uncharacterized protein/tRNA‑dihydrouridine synthase C |
| RA | 2,304,522 | G→T | 6.1% | intergenic (+129/+586) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,304,523 | G→C | 6.1% | intergenic (+130/+585) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,304,649 | C→T | 8.0% | intergenic (+256/+459) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,304,688 | A→G | 13.1% | intergenic (+295/+420) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,383,956 | A→T | 6.5% | intergenic (+32/+39) | elaD → / ← yfbK | protease, capable of cleaving an AMC‑ubiquitin model substrate/Von Willebrand factor domain putative lipoprotein |
| RA | 2,383,959 | A→T | 6.9% | intergenic (+35/+36) | elaD → / ← yfbK | protease, capable of cleaving an AMC‑ubiquitin model substrate/Von Willebrand factor domain putative lipoprotein |
| RA | 2,470,427 | C→A | 19.6% | Q433K (CAA→AAA) | gtrS → | serotype‑specific glucosyl transferase, CPS‑53 (KpLE1) prophage |
| RA | 2,470,431 | G→T | 8.4% | R434I (AGA→ATA) | gtrS → | serotype‑specific glucosyl transferase, CPS‑53 (KpLE1) prophage |
| RA | 2,470,436 | C→A | 11.8% | Q436K (CAA→AAA) | gtrS → | serotype‑specific glucosyl transferase, CPS‑53 (KpLE1) prophage |
| RA | 2,662,524 | C→G | 5.9% | intergenic (‑393/+59) | 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 | 2,714,133 | A→C | 7.4% | K413T (AAG→ACG) | srmB → | ATP‑dependent RNA helicase |
| RA | 2,769,198 | T→A | 7.1% | P178P (CCT→CCA) | yfjQ → | CP4‑57 prophage; uncharacterized protein |
| RA | 2,817,916 | T→G | 7.6% | intergenic (‑56/+143) | argQ ← / ← argZ | tRNA‑Arg/tRNA‑Arg |
| RA | 2,818,046 | A→G | 7.8% | intergenic (‑186/+13) | argQ ← / ← argZ | tRNA‑Arg/tRNA‑Arg |
| RA | 2,818,049 | T→A | 7.5% | intergenic (‑189/+10) | argQ ← / ← argZ | tRNA‑Arg/tRNA‑Arg |
| RA | 3,046,068 | T→A | 14.4% | intergenic (‑167/+100) | ygfF ← / ← gcvP | putative NAD(P)‑dependent oxidoreductase/glycine decarboxylase, PLP‑dependent, subunit P of glycine cleavage complex |
| RA | 3,046,075 | A→C | 5.7% | intergenic (‑174/+93) | ygfF ← / ← gcvP | putative NAD(P)‑dependent oxidoreductase/glycine decarboxylase, PLP‑dependent, subunit P of glycine cleavage complex |
| RA | 3,180,505 | G→T | 5.3% | E29* (GAG→TAG) ‡ | ygiC → | ATP‑Grasp family ATPase |
| RA | 3,180,506 | A→C | 5.2% | E29A (GAG→GCG) ‡ | ygiC → | ATP‑Grasp family ATPase |
| RA | 3,239,609 | T→G | 7.0% | intergenic (+64/‑335) | alx → / → sstT | putative membrane‑bound redox modulator/sodium:serine/threonine symporter |
| RA | 3,270,082 | A→C | 5.7% | intergenic (+480/+134) | yhaC → / ← rnpB | pentapetide repeats‑related protein/RNase P, M1 RNA component |
| RA | 3,368,173 | C→T | 5.1% | P116L (CCG→CTG) | yhcG → | DUF1016 family protein in the PD‑(D/E)XK nuclease superfamily |
| RA | 3,368,220 | C→G | 5.3% | L132V (CTG→GTG) ‡ | yhcG → | DUF1016 family protein in the PD‑(D/E)XK nuclease superfamily |
| RA | 3,368,221 | T→C | 5.2% | L132P (CTG→CCG) ‡ | yhcG → | DUF1016 family protein in the PD‑(D/E)XK nuclease superfamily |
| RA | 3,458,110 | C→A | 100% | T578T (ACC→ACA) | gspD → | general secretory pathway component, cryptic |
| RA | 3,482,325 | G→A | 100% | R346H (CGC→CAC) | yheS → | ABC‑F family protein predicted regulatory ATPase |
| RA | 3,504,855 | T→G | 6.2% | intergenic (+72/+80) | frlR → / ← yhfS | putative DNA‑binding transcriptional regulator/FNR‑regulated pyridoxal phosphate‑dependent aminotransferase family protein |
| RA | 3,504,880 | A→C | 8.6% | intergenic (+97/+55) | frlR → / ← yhfS | putative DNA‑binding transcriptional regulator/FNR‑regulated pyridoxal phosphate‑dependent aminotransferase family 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 | 3,608,695 | C→G | 12.9% | intergenic (+46/+56) | zntA → / ← tusA | zinc, cobalt and lead efflux system/mnm(5)‑s(2)U34‑tRNA 2‑thiolation sulfurtransferase |
| RA | 3,642,358 | T→A | 5.5% | intergenic (+27/+22) | dtpB → / ← rsmJ | dipeptide and tripeptide permease B/16S rRNA m(2)G1516 methyltransferase, SAM‑dependent |
| RA | 3,642,361 | T→A | 5.3% | intergenic (+30/+19) | dtpB → / ← rsmJ | dipeptide and tripeptide permease B/16S rRNA m(2)G1516 methyltransferase, SAM‑dependent |
| RA | 3,708,596 | T→A | 5.2% | intergenic (‑891/+20) | dppA ← / ← proK | dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor/tRNA‑Pro |
| RA | 3,781,022 | T→G | 8.3% | intergenic (+5/‑193) | lldD → / → trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| RA | 3,781,067 | T→G | 11.9% | intergenic (+50/‑148) | lldD → / → trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| RA | 3,781,131 | T→G | 5.2% | intergenic (+114/‑84) | lldD → / → trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| MC JC | 3,815,859 | Δ82 bp | 100% | [rph]–[rph] | [rph], [rph] | |
| RA | 3,828,980 | A→C | 6.0% | Q12H (CAA→CAC) | xanP → | xanthine permease |
| RA | 3,908,506 | C→G | 5.3% | intergenic (‑140/+43) | pstB ← / ← pstA | phosphate ABC transporter ATPase/phosphate ABC transporter permease |
| RA | 3,959,501 | T→A | 11.9% | intergenic (+56/+31) | ilvC → / ← ppiC | ketol‑acid reductoisomerase, NAD(P)‑binding/peptidyl‑prolyl cis‑trans isomerase C (rotamase C) |
| RA | 3,959,515 | T→A | 11.9% | intergenic (+70/+17) | ilvC → / ← ppiC | ketol‑acid reductoisomerase, NAD(P)‑binding/peptidyl‑prolyl cis‑trans isomerase C (rotamase C) |
| RA | 4,015,093 | G→T | 10.3% | D681Y (GAT→TAT) | metE → | 5‑methyltetrahydropteroyltriglutamate‑ homocysteine S‑methyltransferase |
| RA | 4,213,234 | A→C | 5.5% | M1M (ATG→CTG) † | yjaA → | stress‑induced protein |
| RA | 4,244,626 | T→A | 5.9% | K150N (AAA→AAT) | malF ← | maltose transporter subunit |
| RA | 4,296,060 | C→T | 35.0% | intergenic (+266/+376) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,296,380:1 | +CG | 100% | intergenic (+586/+56) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,356,445 | A→T | 5.6% | intergenic (‑34/+25) | dtpC ← / ← cadA | dipeptide and tripeptide permease/lysine decarboxylase, acid‑inducible |
| RA | 4,356,446 | A→T | 5.3% | intergenic (‑35/+24) | dtpC ← / ← cadA | dipeptide and tripeptide permease/lysine decarboxylase, acid‑inducible |
| RA | 4,422,895 | C→G | 5.3% | A17G (GCC→GGC) | ulaE → | L‑xylulose 5‑phosphate 3‑epimerase |
| RA | 4,473,927 | C→A | 100% | A43S (GCC→TCC) | bdcA ← | c‑di‑GMP‑binding biofilm dispersal mediator protein |
| RA | 4,520,500 | Δ1 bp | 5.3% | intergenic (‑176/+171) | yjhU ← / ← yjhF | putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter |
| RA | 4,520,504:1 | +T | 5.1% | intergenic (‑180/+167) | yjhU ← / ← yjhF | putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter |
| RA | 4,614,378 | A→G | 6.0% | intergenic (+118/+302) | yjjV → / ← yjjW | putative DNase/putative pyruvate formate lyase activating enzyme |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 448611 | 450706 | 2096 | 254 [248] | [232] 251 | [cyoC]–[cyoA] | [cyoC],cyoB,[cyoA] |
| * | * | ÷ | NC_000913 | 1166015 | 1167440 | 1426 | 250 [243] | [245] 252 | ndh | ndh |
| * | * | ÷ | NC_000913 | 3423719–3424234 | 3424553–3424238 | 5–835 | 251 [248] | [244] 250 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 20044 | NA (NA) | 4 (0.010) | 3/268 | NT | NA | noncoding (520/768 nt) | IS1 | repeat region |
| ? | NC_000913 | = 20084 | NA (NA) | noncoding (480/768 nt) | IS1 | repeat region | |||||
| * | ? | NC_000913 | 225078 = | NA (NA) | 19 (0.040) | 13/264 | 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 | 274038 = | NA (NA) | 7 (0.010) | 5/266 | NT | NA | noncoding (1112/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274083 = | NA (NA) | noncoding (1067/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 274382 = | NA (NA) | 5 (0.010) | 5/266 | NT | NA | noncoding (768/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274493 = | NA (NA) | noncoding (657/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 274384 = | NA (NA) | 6 (0.010) | 3/272 | 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) | 8 (0.020) | 4/260 | NT | NA | noncoding (530/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274663 = | NA (NA) | noncoding (487/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 274695 | NA (NA) | 3 (0.010) | 3/270 | NT | NA | noncoding (455/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 274727 | NA (NA) | noncoding (423/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 315991 = | NA (NA) | 8 (0.020) | 3/270 | NT | NA | noncoding (763/1255 nt) | IS3 | repeat region |
| ? | NC_000913 | 316014 = | NA (NA) | noncoding (786/1255 nt) | IS3 | repeat region | |||||
| * | ? | NC_000913 | = 316201 | NA (NA) | 4 (0.010) | 3/260 | NT | NA | noncoding (973/1255 nt) | IS3 | repeat region |
| ? | NC_000913 | = 316220 | NA (NA) | noncoding (992/1255 nt) | IS3 | repeat region | |||||
| * | ? | NC_000913 | = 357544 | NA (NA) | 8 (0.020) | 6/264 | NT | NA | noncoding (61/79 nt) | REP27 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP27 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | = 357755 | NA (NA) | noncoding (72/79 nt) | REP28 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP28 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | = 381669 | NA (NA) | 5 (0.010) | 3/264 | NT | NA | noncoding (410/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 381695 | NA (NA) | noncoding (436/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 382110 = | NA (NA) | 7 (0.010) | 5/268 | NT | NA | noncoding (851/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 382141 = | NA (NA) | noncoding (882/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 382323 | NA (NA) | 5 (0.010) | 3/268 | NT | NA | noncoding (1064/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 382348 | NA (NA) | noncoding (1089/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 445266 | NA (NA) | 9 (0.020) | 5/268 | NT | NA | noncoding (67/87 nt) | REP40 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP40 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | = 445281 | NA (NA) | noncoding (82/87 nt) | REP40 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP40 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | 781369 = | 297 (0.610) | 57 (0.120) +GAAG |
29/270 | NT | 16.9% | noncoding (1/76 nt) | lysZ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 280 (0.570) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | 781577 = | 334 (0.680) | 104 (0.220) +GAAG |
5/270 | NT | 25.9% | noncoding (1/76 nt) | lysQ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 280 (0.570) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | 832307 = | NA (NA) | 14 (0.030) | 4/264 | NT | NA | noncoding (19/98 nt) | RIP75 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP75 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913 | 3563589 = | NA (NA) | noncoding (8/98 nt) | RIP256 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP256 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | 1096961 = | 458 (0.940) | 16 (0.040) +27 bp |
8/224 | NT | 7.1% | intergenic (+132/+604) | ycdU/serX | putative inner membrane protein/tRNA‑Ser |
| ? | NC_000913 | 1097275 = | 60 (0.120) | intergenic (+446/+290) | ycdU/serX | putative inner membrane protein/tRNA‑Ser | |||||
| * | ? | NC_000913 | 1165696 = | NA (NA) | 9 (0.020) | 4/256 | NT | NA | intergenic (+11/‑389) | ycfP/ndh | putative UPF0227 family esterase/respiratory NADH dehydrogenase 2/cupric reductase |
| ? | NC_000913 | 1165728 = | NA (NA) | intergenic (+43/‑357) | ycfP/ndh | putative UPF0227 family esterase/respiratory NADH dehydrogenase 2/cupric reductase | |||||
| * | ? | NC_000913 | 1207790 = | 117 (0.240) | 258 (0.600) | 112/246 | NT | 70.1% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 117 (0.270) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 108 (0.220) | 307 (0.710) | 125/246 | NT | 74.3% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 117 (0.270) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1287084 | 214 (0.440) | 22 (0.050) | 9/238 | NT | 9.2% | noncoding (153/171 nt) | rttR | rtT sRNA, processed from tyrT transcript |
| ? | NC_000913 | 1287557 = | 253 (0.610) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 375 (0.790) | 142/270 | 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 | = 2408797 | NA (NA) | 10 (0.020) | 7/262 | NT | NA | noncoding (6/19 nt) | REP167 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP167 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | = 2408804 | NA (NA) | noncoding (13/19 nt) | REP167 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP167 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||
| * | ? | NC_000913 | 2549484 = | NA (NA) | 5 (0.010) | 4/264 | NT | NA | noncoding (19/98 nt) | RIP176 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP176 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913 | 3676128 = | NA (NA) | noncoding (8/161 nt) | RIP264 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | RIP264 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | 2726200 = | NA (NA) | 21 (0.040) | 7/266 | NT | NA | intergenic (‑12/+81) | rrfG/rrlG | 5S ribosomal RNA of rrnG operon/23S ribosomal RNA of rrnG operon |
| ? | NC_000913 | 2726224 = | NA (NA) | intergenic (‑36/+57) | rrfG/rrlG | 5S ribosomal RNA of rrnG operon/23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | 2728214 = | NA (NA) | 13 (0.030) | 8/270 | 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 | = 2817942 | 377 (0.770) | 37 (0.090) | 23/238 | NT | 11.0% | intergenic (‑82/+117) | argQ/argZ | tRNA‑Arg/tRNA‑Arg |
| ? | NC_000913 | 2818492 = | 279 (0.670) | noncoding (58/77 nt) | argV | tRNA‑Arg | |||||
| * | ? | NC_000913 | 3426904 = | NA (NA) | 5 (0.010) | 4/270 | NT | NA | intergenic (‑121/+54) | rrlD/alaU | 23S ribosomal RNA of rrnD operon/tRNA‑Ala |
| ? | NC_000913 | 3426926 = | NA (NA) | intergenic (‑143/+32) | rrlD/alaU | 23S ribosomal RNA of rrnD operon/tRNA‑Ala | |||||
| * | ? | NC_000913 | 3563600 = | NA (NA) | 9 (0.020) | 3/264 | NT | NA | noncoding (19/98 nt) | RIP256 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP256 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913 | = 3639299 | NA (NA) | noncoding (91/98 nt) | RIP261 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP261 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | = 3620220 | NA (NA) | 5 (0.010) | 3/266 | 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 | = 4171625 | 302 (0.620) | 16 (0.030) | 7/266 | NT | 5.2% | 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 | = 4374578 | NA (NA) | 8 (0.020) | 6/264 | NT | NA | noncoding (81/99 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 | = 4374589 | NA (NA) | noncoding (92/99 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 | 4415962 = | NA (NA) | 5 (0.010) | 3/266 | NT | NA | noncoding (5/34 nt) | REP332 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP332 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | 4415992 = | NA (NA) | intergenic (+92/+25) | aidB/yjfN | DNA alkylation damage repair protein; flavin‑containing DNA binding protein, weak isovaleryl CoA dehydrogenase/DUF1471 family periplasmic protein | |||||
| * | ? | NC_000913 | 4542682 = | 382 (0.780) | 35 (0.080) | 29/260 | NT | 8.2% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | 4542996 = | 423 (0.930) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | = 4542690 | 375 (0.770) | 28 (0.060) | 21/260 | NT | 6.8% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4542986 | 423 (0.930) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||