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 | 19,319 | C→T | 5.4% | L53L (CTG→TTG) | PP_0015 → | transposon protein |
| RA | 58,750 | T→A | 5.3% | intergenic (‑661/+27) | PP_5424 ← / ← PP_0050 | hypothetical protein/hypothetical protein |
| RA | 117,271 | A→T | 21.6% | intergenic (+51/+43) | PP_0111 → / ← metQ | electron transport protein SCO1/SenC/methionine ABC transporter substrate‑binding protein |
| RA | 195,559 | C→A | 32.0% | T355T (ACC→ACA) | PP_0168 → | putative surface adhesion protein |
| RA | 195,628 | C→T | 14.2% | D378D (GAC→GAT) | PP_0168 → | putative surface adhesion protein |
| RA | 195,629 | A→G | 13.3% | T379A (ACC→GCC) | PP_0168 → | putative surface adhesion protein |
| RA | 195,634 | C→T | 44.4% | T380T (ACC→ACT) | PP_0168 → | putative surface adhesion protein |
| RA | 196,306 | T→C | 20.7% | N604N (AAT→AAC) | PP_0168 → | putative surface adhesion protein |
| RA | 196,327 | A→C | 23.8% | T611T (ACA→ACC) | PP_0168 → | putative surface adhesion protein |
| RA | 196,351 | C→G | 28.0% | T619T (ACC→ACG) | PP_0168 → | putative surface adhesion protein |
| RA | 196,372 | A→G | 7.3% | K626K (AAA→AAG) | PP_0168 → | putative surface adhesion protein |
| RA | 196,390 | T→C | 27.3% | D632D (GAT→GAC) | PP_0168 → | putative surface adhesion protein |
| RA | 196,795 | G→C | 9.6% | T767T (ACG→ACC) | PP_0168 → | putative surface adhesion protein |
| RA | 196,879 | G→A | 13.3% | V795V (GTG→GTA) | PP_0168 → | putative surface adhesion protein |
| RA | 197,032 | C→T | 5.9% | T846T (ACC→ACT) | PP_0168 → | putative surface adhesion protein |
| RA | 197,089 | T→C | 12.5% | N865N (AAT→AAC) | PP_0168 → | putative surface adhesion protein |
| RA | 197,179 | A→G | 7.6% | V895V (GTA→GTG) | PP_0168 → | putative surface adhesion protein |
| RA | 197,185 | C→T | 6.8% | T897T (ACC→ACT) | PP_0168 → | putative surface adhesion protein |
| RA | 197,551 | C→G | 15.7% | T1019T (ACC→ACG) | PP_0168 → | putative surface adhesion protein |
| RA | 197,572 | G→A | 21.8% | K1026K (AAG→AAA) | PP_0168 → | putative surface adhesion protein |
| RA | 197,590 | T→C | 21.6% | D1032D (GAT→GAC) | PP_0168 → | putative surface adhesion protein |
| RA | 197,632 | T→C | 13.8% | T1046T (ACT→ACC) | PP_0168 → | putative surface adhesion protein |
| RA | 197,695 | G→C | 9.1% | T1067T (ACG→ACC) | PP_0168 → | putative surface adhesion protein |
| RA | 246,553 | A→G | 5.2% | Q244R (CAG→CGG) | yheS → | ABC transporter ATP‑binding protein |
| RA | 307,865:1 | +C | 100% | intergenic (+880/‑989) | hslO → / → PP_0254 | molecular chaperone HslO/hypothetical protein |
| RA | 322,133 | G→A | 11.5% | intergenic (+420/+38) | aguA → / ← PP_0267 | agmatine deiminase/ferric siderophore receptor |
| RA | 322,140 | T→C | 11.4% | intergenic (+427/+31) | aguA → / ← PP_0267 | agmatine deiminase/ferric siderophore receptor |
| RA | 336,124:1 | +T | 100% | coding (209/237 nt) | PP_0278 → | hypothetical protein |
| RA | 353,067 | A→G | 100% | intergenic (+34/+84) | hisF → / ← cbcV | imidazole glycerol phosphate synthase subunit HisF/choline/betaine/carnitine ABC transporter ATP binding protein |
| RA | 358,085 | A→G | 24.8% | intergenic (+53/‑77) | tdcG‑I → / → PP_5441 | L‑serine dehydratase/hypothetical protein |
| RA | 499,203 | A→G | 100% | intergenic (+47/‑249) | uhpA → / → PP_0411 | two‑component system response regulator UhpA/polyamine ABC transporter ATP‑binding protein |
| RA | 503,831 | A→T | 7.2% | intergenic (+34/‑117) | PP_0414 → / → rpe | polyamine ABC transporter permease/ribulose‑5‑phosphate 3‑epimerase |
| RA | 503,832 | A→T | 7.1% | intergenic (+35/‑116) | PP_0414 → / → rpe | polyamine ABC transporter permease/ribulose‑5‑phosphate 3‑epimerase |
| RA | 581,729 | T→A | 5.5% | L340Q (CTG→CAG) | selA → | selenocysteine synthase |
| RA | 610,298 | C→G | 5.7% | S183T (AGC→ACC) | PP_0525 ← | B12 family TonB‑dependent receptor |
| RA | 699,722 | A→G | 58.8% | intergenic (+115/‑129) | PP_t06 → / → PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| RA | 798,664 | T→G | 24.2% | intergenic (+19/+8) | fklB‑I → / ← PP_0685 | FKBP‑type peptidyl‑prolyl cis‑trans isomerase/hypothetical protein |
| RA | 886,100 | T→C | 6.0% | Y671H (TAC→CAC) | PP_0767 → | LuxR family transcriptional regulator |
| RA | 904,474 | G→A | 5.5% | G245S (GGC→AGC) | PP_0788 → | hypothetical protein |
| RA | 1,070,246:1 | +G | 70.7% | intergenic (+46/+96) | aroP‑I → / ← PP_0928 | aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein |
| RA | 1,070,246:2 | +A | 70.7% | intergenic (+46/+96) | aroP‑I → / ← PP_0928 | aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein |
| RA | 1,122,239 | C→A | 5.5% | A191E (GCG→GAG) | PP_0983 → | membrane protein |
| RA | 1,126,645:1 | +C | 100% | intergenic (‑99/+50) | tdcG‑II ← / ← gcvP‑I | L‑serine dehydratase/glycine dehydrogenase |
| RA | 1,177,229 | C→T | 5.2% | P38S (CCG→TCG) | guaA → | glutamine‑hydrolyzing GMP synthase |
| RA | 1,179,298 | T→C | 5.2% | K494E (AAG→GAG) | PP_1033 ← | sulfatase domain‑containing protein |
| RA | 1,258,397 | T→G | 24.1% | S203R (AGC→CGC) | PP_1102 ← | hypothetical protein |
| RA | 1,327,121 | C→T | 46.4% | intergenic (+97/‑196) | PP_16SE → / → PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| RA | 1,346,571 | T→A | 5.1% | K108* (AAG→TAG) | udh ← | uronate dehydrogenase |
| RA | 1,403,591 | T→G | 33.8% | intergenic (‑57/+24) | PP_1227 ← / ← PP_1228 | membrane protein/methyl‑accepting chemotaxis transducer |
| RA | 1,419,548:1 | +C | 100% | intergenic (‑37/+99) | PP_1242 ← / ← PP_1244 | hypothetical protein/hypothetical protein |
| RA | 1,465,880 | G→A | 5.3% | F437F (TTC→TTT) | algG ← | poly(beta‑D‑mannuronate) C5 epimerase |
| RA | 1,499,480 | 2 bp→AC | 100% | intergenic (+57/‑106) | trpS → / → zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
| RA | 1,499,498 | 1 bp→CG | 100% | intergenic (+75/‑89) | trpS → / → zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
| RA | 1,499,506:1 | +C | 100% | intergenic (+83/‑81) | trpS → / → zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
| JC | 1,531,732 | Δ107 bp | 15.8% | coding (38‑144/630 nt) | PP_1344 ← | hypothetical protein |
| RA | 1,571,848 | G→A | 6.6% | A423A (GCG→GCA) | pcaT → | alpha‑ketoglutarate permease |
| RA | 1,777,070 | C→T | 5.3% | A36V (GCG→GTG) | PP_5476 → | hypothetical protein |
| JC | 1,780,067 | Δ62 bp | 37.4% | intergenic (+26/+19) | PP_1587 → / ← dapC | NhaP‑type Na+(K+)/H+ antiporter/N‑succinyl‑L,L‑diaminopimelate aminotransferase |
| RA | 1,798,745 | G→A | 5.7% | R223H (CGC→CAC) | lpxB → | lipid‑A‑disaccharide synthase |
| RA | 1,871,113 | G→T | 6.8% | V129V (GTG→GTT) | cobC → | adenosylcobinamide‑phosphate synthase subunit beta |
| RA | 1,876,689 | A→G | 6.4% | K168K (AAA→AAG) | PP_1682 → | glycoside hydrolase family protein |
| RA | 1,932,638:1 | +C | 100% | intergenic (‑105/+45) | rluA ← / ← minE | bifunctional tRNA pseudouridine(32) synthase TrmQ/ribosomal large subunit pseudouridine synthase RluA/cell division topological specificity factor |
| RA | 1,970,395 | G→A | 5.9% | G256S (GGC→AGC) | mtnA → | methylthioribose‑1‑phosphate isomerase |
| RA | 1,981,987 | A→G | 6.0% | intergenic (+41/‑62) | PP_1774 → / → PP_1775 | hypothetical protein/metallo‑beta‑lactamase family protein |
| RA | 2,017,246 | Δ1 bp | 100% | intergenic (‑854/‑1480) | PP_1795 ← / → PP_1797 | hypothetical protein/HlyD family secretion protein |
| RA | 2,282,770 | T→G | 20.6% | intergenic (‑162/+67) | PP_2010 ← / ← PP_2011 | cytochrome b561/hypothetical protein |
| RA | 2,294,024 | C→G | 22.5% | R7G (CGG→GGG) | PP_2020 → | lipoprotein |
| RA | 2,353,263 | A→G | 6.0% | M1T (ATG→ACG) † D423D (GAT→GAC) |
PP_2067 ← PP_2068 ← |
EmrB/QacA family drug resistance transporter multidrug MFS transporter membrane fusion protein |
| RA | 2,464,725 | C→T | 6.3% | A305T (GCG→ACG) | PP_2157 ← | sensor histidine kinase |
| RA | 2,544,267 | T→C | 5.5% | D169G (GAT→GGT) | PP_2237 ← | hypothetical protein |
| RA | 2,566,600 | C→T | 6.3% | A118T (GCC→ACC) | pctB ← | methyl‑accepting chemotaxis protein PctB |
| RA | 2,602,513 | A→G | 6.0% | K93E (AAG→GAG) | PP_2281 → | capsid assembly protein |
| RA | 2,666,730 | T→C | 11.4% | intergenic (+4/‑62) | acnA‑II → / → prpF | aconitate hydratase/aconitate isomerase |
| RA | 2,668,253 | G→A | 6.4% | L35L (CTG→CTA) | prpD → | 2‑methylcitrate dehydratase |
| RA | 2,751,247 | C→T | 7.6% | A25V (GCC→GTC) | czcC‑II → | cobalt‑zinc‑cadmium resistance protein |
| RA | 2,790,209 | G→A | 6.4% | N13N (AAC→AAT) | PP_2442 ← | DUF480 domain‑containing protein |
| RA | 2,793,755 | A→C | 25.4% | intergenic (+64/+63) | PP_2445 → / ← PP_2446 | membrane protein/hypothetical protein |
| RA | 2,807,565 | G→A | 8.5% | L313L (CTG→CTA) | Nuh → | ribonucleoside hydrolase |
| RA | 2,824,518 | A→C | 20.8% | E44A (GAG→GCG) | PP_2478 → | isoquinoline 1‑oxidoreductase subunit beta |
| RA | 2,854,475 | G→A | 5.9% | W81* (TGG→TAG) | PP_2507 → | short‑chain dehydrogenase/reductase family oxidoreductase |
| RA | 2,863,829 | T→G | 40.3% | S297A (TCG→GCG) | gllR → | HTH‑type transcriptional regulator GalR |
| RA | 2,866,722 | C→T | 6.3% | A19T (GCA→ACA) | glllA ← | gallate dioxygenase |
| RA | 2,946,778 | G→A | 5.4% | T248T (ACC→ACT) | yijP ← | phosphoethanolamine transferase CptA |
| RA | 2,946,794 | A→G | 5.2% | V243A (GTG→GCG) | yijP ← | phosphoethanolamine transferase CptA |
| RA | 2,949,801 | T→G | 17.7% | intergenic (+66/+47) | PP_2583 → / ← oguA | acetyltransferase/8‑oxoguanine deaminase |
| JC | 2,957,081 | Δ84 bp | 28.2% | intergenic (+36/‑77) | PP_2588 → / → PP_2589 | class III aminotransferase/aldehyde dehydrogenase family protein |
| RA | 2,958,523 | C→T | 100% | A428V (GCA→GTA) | PP_2589 → | aldehyde dehydrogenase family protein |
| RA | 3,205,828 | A→T | 5.9% | K378* (AAA→TAA) | PP_2811 → | hypothetical protein |
| RA | 3,304,763 | A→G | 10.0% | intergenic (+16/+16) | cysS → / ← PP_2906 | cysteine‑‑tRNA ligase/sensor histidine kinase |
| RA | 3,304,764 | C→G | 9.8% | intergenic (+17/+15) | cysS → / ← PP_2906 | cysteine‑‑tRNA ligase/sensor histidine kinase |
| RA | 3,304,765 | C→T | 9.7% | intergenic (+18/+14) | cysS → / ← PP_2906 | cysteine‑‑tRNA ligase/sensor histidine kinase |
| RA | 3,323,603 | T→G | 23.4% | D97A (GAC→GCC) | PP_2923 ← | hypothetical protein |
| RA | 3,632,975 | C→T | 7.7% | D149D (GAC→GAT) | PP_3201 → | BNR domain‑containing protein |
| RA | 3,660,358 | G→A | 5.6% | A126V (GCT→GTT) | PP_3224 ← | class II aldolase/adducin domain‑containing protein |
| RA | 3,675,230 | C→T | 5.5% | A148A (GCC→GCT) | tnpT‑II → | cointegrate resolution protein T |
| RA | 3,791,606 | T→G | 26.1% | D571A (GAC→GCC) | PP_3354 ← | acyl‑CoA dehydrogenase |
| RA | 3,812,380 | A→G | 5.3% | Y235C (TAC→TGC) | PP_3368 → | MFS transporter |
| RA | 3,845,703:1 | +G | 100% | intergenic (‑70/+28) | PP_3394 ← / ← PP_3395 | 3‑hydroxy‑3‑methylglutaryl‑CoA lyase/LysR family transcriptional regulator |
| RA | 3,863,394 | A→G | 5.2% | S773G (AGT→GGT) | PP_3413 → | two‑component system sensor histidine kinase/response regulator |
| RA | 3,889,866 | G→A | 6.0% | P285S (CCG→TCG) | hpd ← | 4‑hydroxyphenylpyruvate dioxygenase |
| RA | 3,893,041 | C→G | 5.1% | A135A (GCC→GCG) | rarD → | chloramphenicol‑sensitive protein |
| RA | 3,951,159 | T→C | 100% | intergenic (‑123/+72) | PP_3486 ← / ← PP_3487 | cytochrome c/hypothetical protein |
| RA | 3,951,161 | A→T | 100% | intergenic (‑125/+70) | PP_3486 ← / ← PP_3487 | cytochrome c/hypothetical protein |
| RA | 3,961,296 | G→C | 7.4% | S195T (AGC→ACC) | PP_3491 → | enoly‑coenzyme A hydratase/isomerase family protein |
| RA | 4,020,715 | C→T | 6.3% | R476W (CGG→TGG) | PP_3546 → | two‑component system sensor histidine kinase/response regulator |
| RA | 4,158,463 | C→G | 27.3% | A158G (GCG→GGG) | PP_3661 → | membrane protein |
| RA | 4,158,466 | T→G | 50.7% | L159R (CTG→CGG) | PP_3661 → | membrane protein |
| RA | 4,158,471 | A→C | 55.1% | S161R (AGC→CGC) | PP_3661 → | membrane protein |
| MC JC | 4,274,119 | 32 bp→45 bp | 100% | intergenic (‑243/‑1) | glcC ← / → glcD | transcriptional regulator GlcC/glycolate oxidase FAD‑linked subunit |
| RA | 4,348,812 | A→G | 55.3% | intergenic (‑70/+404) | PP_3820 ← / ← galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| RA | 4,356,305 | T→G | 26.1% | V239G (GTC→GGC) | modC → | molybdate ABC transporter ATP‑binding protein ModC |
| RA | 4,399,501 | Δ1 bp | 6.0% | coding (496/972 nt) | PP_3878 ← | minor capsid protein C |
| RA | 4,506,385 | T→C | 5.5% | intergenic (+50/‑27) | PP_3997 → / → gqr | glycosyl transferase/glutathionyl‑hydroquinone reductase |
| RA | 4,515,496 | A→C | 15.7% | intergenic (‑398/‑10) | ftsK ← / → aat | DNA translocase FtsK/leucyl/phenylalanyl‑tRNA‑‑protein transferase |
| RA | 4,586,137 | 2 bp→TC | 100% | intergenic (+113/+101) | PP_4061 → / ← PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| RA | 4,586,140:1 | +G | 100% | intergenic (+116/+99) | PP_4061 → / ← PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| RA | 4,586,163:1 | +C | 100% | intergenic (+139/+76) | PP_4061 → / ← PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| RA | 4,635,280 | C→A | 14.2% | D195Y (GAC→TAC) | uvrY ← | BarA/UvrY two‑componenent system response regulator |
| JC | 4,715,447 | (GCCTGGCCCTGA)1→2 | 54.0% | coding (571/1932 nt) | PP_4173 → | two‑component system sensor histidine kinase/response regulator |
| RA | 4,725,279 | G→T | 5.2% | H221N (CAT→AAT) | PP_4183 ← | membrane protein |
| RA | 4,740,912 | Δ1 bp | 100% | intergenic (+42/+711) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,740,923 | T→G | 100% | intergenic (+53/+700) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,740,926 | 2 bp→CT | 100% | intergenic (+56/+696) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,336 | A→C | 100% | intergenic (+466/+287) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,338 | C→G | 100% | intergenic (+468/+285) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,341 | C→T | 100% | intergenic (+471/+282) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,343 | 2 bp→TG | 100% | intergenic (+473/+279) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,346 | A→G | 100% | intergenic (+476/+277) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,350 | 3 bp→TGC | 100% | intergenic (+480/+271) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,362 | C→T | 100% | intergenic (+492/+261) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,364 | A→C | 100% | intergenic (+494/+259) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,367 | 2 bp→GC | 100% | intergenic (+497/+255) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,370 | A→C | 100% | intergenic (+500/+253) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,379 | A→G | 100% | intergenic (+509/+244) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,381 | A→C | 100% | intergenic (+511/+242) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,383 | G→C | 100% | intergenic (+513/+240) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,385 | C→T | 100% | intergenic (+515/+238) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,390:1 | +T | 100% | intergenic (+520/+233) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,396 | C→G | 100% | intergenic (+526/+227) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,399 | C→T | 100% | intergenic (+529/+224) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,401 | C→G | 100% | intergenic (+531/+222) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,403 | A→C | 100% | intergenic (+533/+220) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,405 | C→T | 100% | intergenic (+535/+218) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,767,982 | A→T | 100% | intergenic (+89/‑93) | fpvA → / → tpaK | TonB‑dependent outer membrane ferripyoverdine receptor FpvA/probable terephthalate transporter, MFS superfamily protein |
| RA | 4,767,984 | T→G | 100% | intergenic (+91/‑91) | fpvA → / → tpaK | TonB‑dependent outer membrane ferripyoverdine receptor FpvA/probable terephthalate transporter, MFS superfamily protein |
| RA | 4,768,005 | T→A | 100% | intergenic (+112/‑70) | fpvA → / → tpaK | TonB‑dependent outer membrane ferripyoverdine receptor FpvA/probable terephthalate transporter, MFS superfamily protein |
| RA | 4,768,040 | C→T | 30.7% | intergenic (+147/‑35) | fpvA → / → tpaK | TonB‑dependent outer membrane ferripyoverdine receptor FpvA/probable terephthalate transporter, MFS superfamily protein |
| RA | 4,768,045 | C→A | 54.7% | intergenic (+152/‑30) | fpvA → / → tpaK | TonB‑dependent outer membrane ferripyoverdine receptor FpvA/probable terephthalate transporter, MFS superfamily protein |
| RA | 4,794,596 | C→A | 5.9% | R316L (CGG→CTG) | pvdI ← | non‑ribosomal peptide synthetase |
| RA | 4,823,745 | T→C | 5.2% | M3050V (ATG→GTG) | pvdL ← | non‑ribosomal peptide synthetase |
| MC JC | 4,875,480 | Δ756 bp | 100% | coding (1‑756/756 nt) | PP_4283 ← | GntR family transcriptional regulator |
| RA | 4,876,244 | G→T | 5.5% | intergenic (‑9/‑272) | PP_4283 ← / → PP_4284 | GntR family transcriptional regulator/transporter |
| RA | 4,885,070 | C→A | 5.1% | intergenic (+169/‑185) | PP_4291 → / → PP_4293 | hypothetical protein/hypothetical protein |
| RA | 4,930,833 | C→T | 5.5% | A348T (GCC→ACC) | cheA ← | chemotaxis histidine kinase CheA |
| RA | 4,935,572 | A→C | 18.1% | W194G (TGG→GGG) | flhF ← | flagellar biosynthesis protein FlhF |
| JC | 4,982,288 | +GGC | 100% | intergenic (‑24/+44) | PP_4387 ← / ← flgE | hypothetical protein/flagellar hook protein FlgE |
| RA | 4,995,275 | G→A | 8.4% | A86T (GCC→ACC) | bkdAB → | branched‑chain alpha‑keto acid dehydrogenase complex subunit beta |
| RA | 5,106,187 | T→C | 5.4% | I237T (ATC→ACC) | yhhS → | carbohydrate efflux transporter |
| RA | 5,117,346 | C→T | 6.3% | R48H (CGC→CAC) | PP_4500 ← | TrpH family protein |
| RA | 5,196,590 | T→G | 17.6% | intergenic (+29/+24) | PP_4574 → / ← PP_4575 | hypothetical protein/urea amidolyase‑like protein |
| JC | 5,203,271 | Δ98 bp | 22.5% | intergenic (‑54/‑29) | PP_4582 ← / → PP_4583 | membrane protein/putative Peptidase |
| RA | 5,230,898 | C→G | 6.8% | intergenic (‑137/+39) | PP_4606 ← / ← PP_4607 | ferric siderophore receptor/transmembrane sensor |
| RA | 5,230,901 | C→G | 13.0% | intergenic (‑140/+36) | PP_4606 ← / ← PP_4607 | ferric siderophore receptor/transmembrane sensor |
| RA | 5,258,571 | C→G | 39.0% | intergenic (+20/+25) | PP_5703 → / ← PP_4634 | type III effector protein HopJ/alpha/beta family hydrolase |
| RA | 5,346,577 | Δ1 bp | 5.4% | coding (272/1935 nt) | acsA‑II → | acetyl‑CoA synthetase |
| RA | 5,346,578 | G→T | 5.5% | T91T (ACG→ACT) | acsA‑II → | acetyl‑CoA synthetase |
| RA | 5,396,064 | A→G | 100% | V231A (GTA→GCA) | tphBII ← | 4‑hydroxythreonine‑4‑phosphate dehydrogenase |
| RA | 5,484,145 | G→A | 7.4% | P273P (CCG→CCA) | PP_4819 → | hypothetical protein |
| RA | 5,510,903 | T→C | 5.3% | V450A (GTG→GCG) | cycA → | D‑alanine/beta‑alanine/D‑serine/glycine permease |
| RA | 5,512,711 | A→C | 25.9% | Q32P (CAG→CCG) | urtB → | urea ABC transporter permease |
| RA | 5,512,720 | T→G | 30.4% | L35R (CTG→CGG) | urtB → | urea ABC transporter permease |
| RA | 5,512,723 | T→G | 23.0% | L36R (CTC→CGC) | urtB → | urea ABC transporter permease |
| JC | 5,558,423 | +GCC | 93.5% | intergenic (‑84/+87) | PP_4887 ← / ← PP_4888 | hypothetical protein/methyl‑accepting chemotaxis transducer |
| RA | 5,627,022 | A→C | 5.4% | S142A (TCG→GCG) | PP_4942 ← | hypothetical protein |
| RA | 5,677,565:1 | +G | 100% | intergenic (+112/+28) | rhlE‑II → / ← yceI | ATP‑dependent RNA helicase/polyisoprene‑binding acidic stress response factor |
| RA | 5,677,568 | G→C | 100% | intergenic (+115/+25) | rhlE‑II → / ← yceI | ATP‑dependent RNA helicase/polyisoprene‑binding acidic stress response factor |
| RA | 5,777,630 | A→G | 8.2% | T228A (ACC→GCC) | betB → | NAD‑dependent betaine aldehyde dehydrogenase |
| RA | 5,905,980 | A→C | 42.3% | intergenic (‑129/‑139) | PP_5175 ← / → PP_5176 | HlyD family secretion protein/hypothetical protein |
| RA | 5,991,624 | G→A | 10.2% | intergenic (+103/‑443) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,634 | T→C | 10.6% | intergenic (+113/‑433) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,639 | C→T | 10.4% | intergenic (+118/‑428) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,640 | G→T | 10.4% | intergenic (+119/‑427) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,641 | C→T | 10.4% | intergenic (+120/‑426) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,644 | A→G | 10.4% | intergenic (+123/‑423) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,650 | G→C | 12.4% | intergenic (+129/‑417) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,652 | C→G | 13.9% | intergenic (+131/‑415) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,659 | C→G | 13.6% | intergenic (+138/‑408) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,663 | C→T | 13.3% | intergenic (+142/‑404) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,665 | C→T | 13.0% | intergenic (+144/‑402) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,709 | C→T | 24.5% | intergenic (+188/‑358) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,710 | A→G | 24.4% | intergenic (+189/‑357) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,720 | T→C | 24.9% | intergenic (+199/‑347) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,726 | Δ1 bp | 26.9% | intergenic (+205/‑341) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 6,016,700 | T→C | 100% | intergenic (+90/+20) | xpt → / ← PP_5266 | xanthine phosphoribosyltransferase/acetyl‑CoA hydrolase family protein |
| RA | 6,034,932 | C→T | 6.2% | A324V (GCG→GTG) | dppA‑IV → | dipeptide transport protein |
| RA | 6,063,121 | T→A | 5.0% | V449E (GTG→GAG) | PP_5311 → | signal transduction protein |
| RA | 6,135,378 | A→T | 24.3% | H430Q (CAT→CAA) | copA‑II ← | copper resistance protein A |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_002947_CJ‑RC | 171371–176327 | 176327 | 1–4957 | 34 [33] | [33] 34 | PP_16SA–[PP_5SA] | PP_16SA,PP_23SA,[PP_5SA] |
| * | * | ÷ | NC_002947_CJ‑RC | 176637–181730 | 181730 | 1–5094 | 35 [33] | [33] 34 | PP_16SB–[PP_r01] | PP_16SB,PP_23SB,[PP_r01] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947_CJ‑RC | = 401301 | NA (NA) | 4 (0.060) | 4/256 | NT | 8.4% | coding (887/1059 nt) | PP_0334 | transposase |
| ? | NC_002947_CJ‑RC | 401364 = | 46 (0.660) | coding (950/1059 nt) | PP_0334 | transposase | |||||
| * | ? | NC_002947_CJ‑RC | = 652782 | 54 (0.770) | 4 (0.070) | 3/230 | NT | 14.8% | coding (1961/1962 nt) | ctpL | methyl‑accepting chemotaxis protein CtpL |
| ? | NC_002947_CJ‑RC | = 4809862 | 0 (0.000) | intergenic (‑268/‑287) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947_CJ‑RC | 1025267 = | 26 (0.370) | 4 (0.070) | 3/216 | NT | 19.1% | intergenic (‑121/+108) | opdP/dppA‑II | glycine‑glutamate dipeptide porin/dipeptide ABC transporter substrate‑binding protein |
| ? | NC_002947_CJ‑RC | 1025360 = | 13 (0.230) | intergenic (‑214/+15) | opdP/dppA‑II | glycine‑glutamate dipeptide porin/dipeptide ABC transporter substrate‑binding protein | |||||
| * | ? | NC_002947_CJ‑RC | 1487006 = | 28 (0.400) | 3 (0.050) | 3/210 | NT | 18.3% | intergenic (+22/+108) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS |
| ? | NC_002947_CJ‑RC | 1487096 = | 5 (0.090) | intergenic (+112/+18) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS | |||||
| * | ? | NC_002947_CJ‑RC | 1844134 = | 89 (1.270) | 5 (0.070) | 5/260 | NT | 5.7% | coding (660/2754 nt) | gacS | sensor protein GacS |
| ? | NC_002947_CJ‑RC | = 2179376 | 79 (1.170) | intergenic (+175/+93) | PP_1931/PP_5486 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_002947_CJ‑RC | = 2090021 | 54 (0.770) | 3 (0.040) | 3/260 | NT | 5.0% | coding (454/756 nt) | PP_1867 | hypothetical protein |
| ? | NC_002947_CJ‑RC | = 2090088 | 61 (0.900) | coding (521/756 nt) | PP_1867 | hypothetical protein | |||||
| * | ? | NC_002947_CJ‑RC | = 2472115 | 23 (0.330) | 6 (0.090) | 6/256 | NT | 13.5% | intergenic (+19/+130) | PP_2166/PP_2167 | anti‑anti‑sigma factor/PhoD‑like phosphatase |
| ? | NC_002947_CJ‑RC | 2472313 = | 55 (0.830) | coding (1783/1851 nt) | PP_2167 | PhoD‑like phosphatase | |||||
| * | ? | NC_002947_CJ‑RC | = 2632519 | 57 (0.810) | 3 (0.050) | 3/250 | NT | 5.1% | coding (1984/2397 nt) | lon‑II | DNA‑binding ATP‑dependent protease |
| ? | NC_002947_CJ‑RC | = 2632567 | 58 (0.890) | coding (2032/2397 nt) | lon‑II | DNA‑binding ATP‑dependent protease | |||||
| * | ? | NC_002947_CJ‑RC | 2664008 = | 18 (0.260) | 4 (0.070) | 4/222 | NT | 29.9% | intergenic (+33/‑130) | prpC/acnA‑II | methylcitrate synthase/aconitate hydratase |
| ? | NC_002947_CJ‑RC | 2664089 = | 4 (0.070) | intergenic (+114/‑49) | prpC/acnA‑II | methylcitrate synthase/aconitate hydratase | |||||
| * | ? | NC_002947_CJ‑RC | 2807026 = | 58 (0.830) | 5 (0.080) | 3/254 | NT | 9.2% | coding (400/969 nt) | Nuh | ribonucleoside hydrolase |
| ? | NC_002947_CJ‑RC | 2807079 = | 44 (0.670) | coding (453/969 nt) | Nuh | ribonucleoside hydrolase | |||||
| * | ? | NC_002947_CJ‑RC | = 3498133 | 71 (1.010) | 3 (0.050) | 3/252 | NT | 5.0% | intergenic (‑537/+169) | PP_5562/PP_5563 | hypothetical protein/membrane protein |
| ? | NC_002947_CJ‑RC | = 3498187 | 47 (0.720) | intergenic (‑591/+115) | PP_5562/PP_5563 | hypothetical protein/membrane protein | |||||
| * | ? | NC_002947_CJ‑RC | = 4586136 | 16 (0.230) | 18 (0.280) | 14/248 | NT | 54.8% | intergenic (+112/+103) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947_CJ‑RC | = 4586216 | 15 (0.230) | intergenic (+192/+23) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||
| * | ? | NC_002947_CJ‑RC | = 4683293 | 40 (0.570) | 3 (0.050) | 3/226 | NT | 8.3% | intergenic (+45/‑176) | mltD/PP_4146 | membrane‑bound lytic murein transglycosylase D/peptide ABC transporter substrate‑binding protein |
| ? | NC_002947_CJ‑RC | = 4683341 | 33 (0.560) | intergenic (+93/‑128) | mltD/PP_4146 | membrane‑bound lytic murein transglycosylase D/peptide ABC transporter substrate‑binding protein | |||||
| * | ? | NC_002947_CJ‑RC | 4809877 = | 0 (0.000) | 22 (0.420) | 16/200 | NT | 57.9% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947_CJ‑RC | = 5991750 | 32 (0.620) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947_CJ‑RC | = 4809882 | 0 (0.000) | 16 (0.250) | 15/246 | NT | 40.0% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947_CJ‑RC | 5991580 = | 48 (0.750) | intergenic (+59/‑487) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947_CJ‑RC | = 5445493 | 49 (0.700) | 4 (0.060) | 4/264 | NT | 7.0% | intergenic (‑95/+113) | PP_4780/PP_4781 | acyl‑CoA dehydrogenase/sensor histidine kinase |
| ? | NC_002947_CJ‑RC | = 5445625 | 58 (0.850) | coding (1970/1989 nt) | PP_4781 | sensor histidine kinase | |||||
| * | ? | NC_002947_CJ‑RC | = 5916999 | 18 (0.260) | 3 (0.050) | 3/214 | NT | 17.5% | intergenic (+76/+77) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase |
| ? | NC_002947_CJ‑RC | = 5917039 | 14 (0.250) | intergenic (+116/+37) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase | |||||
| * | ? | NC_002947_CJ‑RC | = 5991574 | 49 (0.700) | 3 (0.050) | 3/256 | NT | 6.9% | intergenic (+53/‑493) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| ? | NC_002947_CJ‑RC | 5991766 = | 35 (0.530) | intergenic (+245/‑301) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947_CJ‑RC | = 5991586 | 43 (0.610) | 10 (0.150) | 9/254 | NT | 20.1% | intergenic (+65/‑481) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| ? | NC_002947_CJ‑RC | 5991778 = | 39 (0.590) | intergenic (+257/‑289) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||