mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | position | mutation | freq | annotation | gene | description |
| RA | 43,457 | Δ1 bp | 19.4% | intergenic (+23/+70) | PP_0040 → / ← cadA‑I | hypothetical protein/cadmium translocating P‑type ATPase |
| RA | 43,461:1 | +A | 19.4% | intergenic (+27/+66) | PP_0040 → / ← cadA‑I | hypothetical protein/cadmium translocating P‑type ATPase |
| RA | 67,746 | C→T | 13.3% | P352S (CCG→TCG) | PP_0057 → | major facilitator family transporter |
| RA | 72,026 | G→A | 8.2% | R275C (CGT→TGT) | glyQ ← | glycine‑tRNA ligase subunit alpha |
| RA | 76,882 | G→C | 14.1% | A221G (GCC→GGC) | rsmB ← | ribosomal RNA small subunit methyltransferase B |
| RA | 115,951 | T→G | 11.8% | L85W (TTG→TGG) | PP_0110 → | CyoE‑like protoheme IX farnesyltransferase |
| RA | 115,956 | C→A | 10.8% | Q87K (CAA→AAA) | PP_0110 → | CyoE‑like protoheme IX farnesyltransferase |
| RA | 160,310 | C→T | 13.8% | E27K (GAG→AAG) | PP_0149 ← | hypothetical protein |
| RA | 160,311 | A→G | 14.3% | L26L (CTT→CTC) | PP_0149 ← | hypothetical protein |
| RA | 181,805 | T→C | 18.8% | intergenic (+19/‑87) | PP_r01 → / → PP_5SB | 5S ribosomal RNA/5S ribosomal RNA |
| RA | 181,811 | C→T | 19.4% | intergenic (+25/‑81) | PP_r01 → / → PP_5SB | 5S ribosomal RNA/5S ribosomal RNA |
| RA | 181,812 | A→G | 19.3% | intergenic (+26/‑80) | PP_r01 → / → PP_5SB | 5S ribosomal RNA/5S ribosomal RNA |
| RA | 181,818 | G→A | 18.2% | intergenic (+32/‑74) | PP_r01 → / → PP_5SB | 5S ribosomal RNA/5S ribosomal RNA |
| RA | 195,629 | A→G | 12.5% | T379A (ACC→GCC) | PP_0168 → | putative surface adhesion protein |
| RA | 195,634 | C→T | 34.3% | T380T (ACC→ACT) | PP_0168 → | putative surface adhesion protein |
| RA | 196,306 | T→C | 30.8% | N604N (AAT→AAC) | PP_0168 → | putative surface adhesion protein |
| RA | 196,327 | A→C | 31.5% | T611T (ACA→ACC) | PP_0168 → | putative surface adhesion protein |
| RA | 196,351 | C→G | 24.8% | T619T (ACC→ACG) | PP_0168 → | putative surface adhesion protein |
| RA | 196,390 | T→C | 26.9% | D632D (GAT→GAC) | PP_0168 → | putative surface adhesion protein |
| RA | 197,551 | C→G | 16.7% | T1019T (ACC→ACG) | PP_0168 → | putative surface adhesion protein |
| RA | 197,572 | G→A | 27.3% | K1026K (AAG→AAA) | PP_0168 → | putative surface adhesion protein |
| RA | 197,590 | T→C | 31.9% | D1032D (GAT→GAC) | PP_0168 → | putative surface adhesion protein |
| RA | 289,046 | G→C | 14.3% | G155A (GGC→GCC) | oprE → | outer‑membrane porin E |
| RA | 319,217 | A→T | 14.8% | I176N (ATC→AAC) | PP_0264 ← | sensor histidine kinase |
| RA | 321,309 | G→A | 18.2% | W234* (TGG→TAG) | aguA → | agmatine deiminase |
| RA | 322,135 | G→A | 22.2% | intergenic (+420/+38) | aguA → / ← PP_0267 | agmatine deiminase/ferric siderophore receptor |
| RA | 322,142 | T→C | 21.6% | intergenic (+427/+31) | aguA → / ← PP_0267 | agmatine deiminase/ferric siderophore receptor |
| RA | 474,195 | Δ1 bp | 11.8% | coding (793/1983 nt) | dnaG ← | DNA primase |
| RA | 474,199 | G→C | 12.3% | I263M (ATC→ATG) | dnaG ← | DNA primase |
| RA | 474,202:1 | +G | 12.1% | coding (786/1983 nt) | dnaG ← | DNA primase |
| RA | 697,140 | G→T | 12.1% | intergenic (+64/‑687) | mmsA‑I → / → PP_16SD | methylmalonate‑semialdehyde dehydrogenase/16S ribosomal RNA |
| RA | 697,217 | T→C | 16.7% | intergenic (+141/‑610) | mmsA‑I → / → PP_16SD | methylmalonate‑semialdehyde dehydrogenase/16S ribosomal RNA |
| RA | 697,228 | C→G | 25.0% | intergenic (+152/‑599) | mmsA‑I → / → PP_16SD | methylmalonate‑semialdehyde dehydrogenase/16S ribosomal RNA |
| RA | 697,231 | C→G | 25.0% | intergenic (+155/‑596) | mmsA‑I → / → PP_16SD | methylmalonate‑semialdehyde dehydrogenase/16S ribosomal RNA |
| RA | 697,242 | G→A | 24.0% | intergenic (+166/‑585) | mmsA‑I → / → PP_16SD | methylmalonate‑semialdehyde dehydrogenase/16S ribosomal RNA |
| RA | 697,253 | G→A | 17.4% | intergenic (+177/‑574) | mmsA‑I → / → PP_16SD | methylmalonate‑semialdehyde dehydrogenase/16S ribosomal RNA |
| RA | 699,725 | A→G | 53.0% | intergenic (+115/‑129) | PP_t06 → / → PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| RA | 994,950 | T→A | 25.0% | intergenic (+26/+99) | PP_0859 → / ← PP_0860 | ketoglutaramate omega‑amidase/sulfite reductase flavoprotein subunit |
| RA | 994,951 | T→A | 24.9% | intergenic (+27/+98) | PP_0859 → / ← PP_0860 | ketoglutaramate omega‑amidase/sulfite reductase flavoprotein subunit |
| RA | 1,001,196 | A→T | 11.1% | Q57L (CAG→CTG) | PP_0863 → | hypothetical protein |
| RA | 1,001,199 | A→T | 11.1% | Q58L (CAG→CTG) | PP_0863 → | hypothetical protein |
| RA | 1,013,231 | A→T | 30.5% | intergenic (+56/+75) | prfC → / ← potF‑I | peptide chain release factor 3/putrescine‑binding protein |
| RA | 1,013,237 | C→A | 27.3% | intergenic (+62/+69) | prfC → / ← potF‑I | peptide chain release factor 3/putrescine‑binding protein |
| RA | 1,013,238 | A→T | 27.3% | intergenic (+63/+68) | prfC → / ← potF‑I | peptide chain release factor 3/putrescine‑binding protein |
| RA | 1,013,244 | G→C | 31.6% | intergenic (+69/+62) | prfC → / ← potF‑I | peptide chain release factor 3/putrescine‑binding protein |
| RA | 1,013,245 | G→C | 31.6% | intergenic (+70/+61) | prfC → / ← potF‑I | peptide chain release factor 3/putrescine‑binding protein |
| RA | 1,013,251 | A→T | 32.6% | intergenic (+76/+55) | prfC → / ← potF‑I | peptide chain release factor 3/putrescine‑binding protein |
| RA | 1,013,252 | T→G | 33.4% | intergenic (+77/+54) | prfC → / ← potF‑I | peptide chain release factor 3/putrescine‑binding protein |
| RA | 1,013,258 | A→T | 35.4% | intergenic (+83/+48) | prfC → / ← potF‑I | peptide chain release factor 3/putrescine‑binding protein |
| RA | 1,052,565 | G→A | 14.7% | P269S (CCC→TCC) | PP_0910 ← | hypothetical protein |
| RA | 1,204,422 | G→T | 18.2% | intergenic (+114/+46) | gspN → / ← PP_1056 | type II secretion pathway protein GspN/iron‑chelator utilization protein |
| RA | 1,256,639 | C→G | 14.8% | A325A (GCC→GCG) | mrp → | ATP‑dependent Fe‑S cluster transferase |
| RA | 1,327,127 | C→T | 58.6% | intergenic (+97/‑196) | PP_16SE → / → PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| RA | 1,356,411 | G→C | 11.7% | G94A (GGC→GCC) | PP_1181 → | two‑component system response regulator |
| RA | 1,403,596 | G→A | 23.6% | intergenic (‑56/+25) | PP_1227 ← / ← PP_1228 | membrane protein/methyl‑accepting chemotaxis transducer |
| RA | 1,403,597 | T→C | 23.5% | intergenic (‑57/+24) | PP_1227 ← / ← PP_1228 | membrane protein/methyl‑accepting chemotaxis transducer |
| RA | 1,463,031 | A→T | 17.4% | intergenic (‑100/+42) | algI ← / ← algL | alginate O‑acetylase AlgI/alginate lyase |
| RA | 1,463,032 | A→T | 17.4% | intergenic (‑101/+41) | algI ← / ← algL | alginate O‑acetylase AlgI/alginate lyase |
| RA | 1,469,815 | A→G | 14.3% | V112A (GTG→GCG) | algK ← | alginate biosynthesis protein AlgK |
| RA | 1,469,818 | A→T | 16.6% | L111Q (CTG→CAG) | algK ← | alginate biosynthesis protein AlgK |
| RA | 1,469,821 | A→T | 15.1% | L110Q (CTG→CAG) | algK ← | alginate biosynthesis protein AlgK |
| RA | 1,469,824 | C→T | 16.2% | R109H (CGC→CAC) | algK ← | alginate biosynthesis protein AlgK |
| JC | 1,648,886 | Δ12 bp | 53.7% | intergenic (‑123/+162) | oprB‑II ← / ← PP_1446 | carbohydrate‑selective porin/TonB‑dependent receptor |
| RA | 1,703,263 | T→C | 18.3% | intergenic (+70/‑97) | lysS → / → PP_1497 | lysine‑‑tRNA ligase/TetR family transcriptional regulator |
| RA | 1,728,698 | A→G | 20.9% | intergenic (+50/+73) | cspA‑I → / ← PP_1523 | major cold shock protein/hypothetical protein |
| RA | 1,728,699 | C→T | 20.1% | intergenic (+51/+72) | cspA‑I → / ← PP_1523 | major cold shock protein/hypothetical protein |
| RA | 1,745,342 | T→C | 18.1% | E154G (GAG→GGG) | PP_1543 ← | hypothetical protein |
| RA | 1,851,762 | C→T | 43.7% | S269L (TCG→TTG) | relA → | ATP:GTP 3'‑pyrophosphotransferase |
| RA | 1,852,053 | G→T | 37.5% | W366L (TGG→TTG) | relA → | ATP:GTP 3'‑pyrophosphotransferase |
| RA | 1,903,222 | A→G | 23.6% | Q1244R (CAG→CGG) | PP_1703 → | assimilatory nitrate reductase/sulfite reductase |
| RA | 2,072,728 | C→T | 19.7% | L241L (CTG→CTA) | PP_1847 ← | TonB‑dependent ferric siderophore receptor |
| RA | 2,100,098 | G→C | 14.8% | intergenic (‑166/‑39) | PP_1875 ← / → PP_1876 | two‑component system sensor histidine kinase/response regulator/AAA family ATP/GTP‑binding protein |
| RA | 2,100,099 | C→A | 14.8% | intergenic (‑167/‑38) | PP_1875 ← / → PP_1876 | two‑component system sensor histidine kinase/response regulator/AAA family ATP/GTP‑binding protein |
| RA | 2,112,775 | C→A | 18.2% | P518P (CCG→CCT) ‡ | PP_1882 ← | membrane protein |
| RA | 2,112,776 | G→C | 18.2% | P518R (CCG→CGG) ‡ | PP_1882 ← | membrane protein |
| RA | 2,112,781 | G→C | 19.1% | H516Q (CAC→CAG) ‡ | PP_1882 ← | membrane protein |
| RA | 2,112,782 | T→G | 19.1% | H516P (CAC→CCC) ‡ | PP_1882 ← | membrane protein |
| RA | 2,282,813 | T→G | 46.7% | intergenic (‑162/+67) | PP_2010 ← / ← PP_2011 | cytochrome b561/hypothetical protein |
| RA | 2,282,822 | C→A | 43.9% | intergenic (‑171/+58) | PP_2010 ← / ← PP_2011 | cytochrome b561/hypothetical protein |
| RA | 2,478,883 | G→A | 23.5% | intergenic (+93/+352) | PP_2172 → / ← PP_2173 | hypothetical protein/AraC family transcriptional regulator |
| RA | 2,478,884 | C→A | 23.5% | intergenic (+94/+351) | PP_2172 → / ← PP_2173 | hypothetical protein/AraC family transcriptional regulator |
| RA | 2,478,888 | G→C | 23.5% | intergenic (+98/+347) | PP_2172 → / ← PP_2173 | hypothetical protein/AraC family transcriptional regulator |
| RA | 2,478,892 | T→G | 23.5% | intergenic (+102/+343) | PP_2172 → / ← PP_2173 | hypothetical protein/AraC family transcriptional regulator |
| RA | 2,478,893 | T→C | 23.5% | intergenic (+103/+342) | PP_2172 → / ← PP_2173 | hypothetical protein/AraC family transcriptional regulator |
| RA | 2,514,934 | G→C | 25.0% | P166A (CCG→GCG) | phnX ← | phosphonoacetaldehyde hydrolase |
| RA | 2,531,947 | T→A | 21.0% | A53A (GCT→GCA) | PP_2222 → | hypothetical protein |
| RA | 2,546,866 | T→C | 40.3% | intergenic (+22/+18) | PP_2238 → / ← PP_5504 | metallopeptidase/hypothetical protein |
| RA | 2,546,869 | G→A | 40.2% | intergenic (+25/+15) | PP_2238 → / ← PP_5504 | metallopeptidase/hypothetical protein |
| RA | 2,673,220 | A→C | 22.2% | D164A (GAT→GCT) | PP_2340 → | hypothetical protein |
| RA | 2,673,222:1 | +C | 22.2% | coding (493/519 nt) | PP_2340 → | hypothetical protein |
| RA | 2,673,232 | G→T | 22.2% | S168I (AGC→ATC) | PP_2340 → | hypothetical protein |
| RA | 2,717,206 | G→C | 15.4% | A626A (GCG→GCC) | cti → | esterified fatty acid cis/trans isomerase |
| RA | 2,800,111 | C→A | 26.8% | E75* (GAA→TAA) | ansB ← | glutaminase‑asparaginase |
| RA | 2,824,560 | G→T | 40.0% | E44* (GAG→TAG) ‡ | PP_2478 → | isoquinoline 1‑oxidoreductase subunit beta |
| RA | 2,824,561 | A→C | 36.6% | E44A (GAG→GCG) ‡ | PP_2478 → | isoquinoline 1‑oxidoreductase subunit beta |
| RA | 2,951,377 | G→C | 50.0% | intergenic (‑113/+48) | oguA ← / ← PP_2585 | 8‑oxoguanine deaminase/alpha‑ketoglutaric semialdehyde dehydrogenase |
| RA | 2,951,384 | A→C | 40.0% | intergenic (‑120/+41) | oguA ← / ← PP_2585 | 8‑oxoguanine deaminase/alpha‑ketoglutaric semialdehyde dehydrogenase |
| RA | 2,951,385 | G→T | 39.5% | intergenic (‑121/+40) | oguA ← / ← PP_2585 | 8‑oxoguanine deaminase/alpha‑ketoglutaric semialdehyde dehydrogenase |
| RA | 2,951,392 | G→C | 28.6% | intergenic (‑128/+33) | oguA ← / ← PP_2585 | 8‑oxoguanine deaminase/alpha‑ketoglutaric semialdehyde dehydrogenase |
| RA | 3,018,022 | C→A | 24.9% | R634R (CGC→CGA) | bcsB → | cellulose synthase and translocator subunit |
| RA | 3,350,711 | G→A | 16.0% | G389S (GGC→AGC) | PP_2945 → | two‑component system sensor histidine kinase/response regulator |
| RA | 3,628,125 | C→G | 23.9% | intergenic (+11/‑129) | PP_3198 → / → PP_3199 | 2Fe‑2S ferredoxin/monooxygenase |
| RA | 3,630,695 | T→A | 26.7% | W425R (TGG→AGG) | PP_3200 → | hypothetical protein |
| RA | 3,630,700 | T→G | 28.6% | L426L (CTT→CTG) | PP_3200 → | hypothetical protein |
| RA | 3,630,703 | C→A | 28.1% | A427A (GCC→GCA) | PP_3200 → | hypothetical protein |
| RA | 3,630,708 | T→A | 26.7% | L429Q (CTG→CAG) | PP_3200 → | hypothetical protein |
| RA | 3,670,152 | C→T | 19.1% | R135C (CGT→TGT) | fnrB → | Crp/Fnr family transcriptional regulator |
| RA | 3,816,546 | A→T | 27.6% | G106G (GGT→GGA) | cpxR ← | two‑component system regulator CpxR |
| RA | 4,002,726 | A→G | 23.3% | intergenic (+29/‑61) | allE → / → PP_3531 | S‑ureidoglycine aminohydrolase/hypothetical protein |
| RA | 4,002,727 | C→G | 20.7% | intergenic (+30/‑60) | allE → / → PP_3531 | S‑ureidoglycine aminohydrolase/hypothetical protein |
| RA | 4,002,728 | C→T | 20.6% | intergenic (+31/‑59) | allE → / → PP_3531 | S‑ureidoglycine aminohydrolase/hypothetical protein |
| RA | 4,071,255 | A→G | 21.0% | D316D (GAT→GAC) | mdtB ← | multidrug transporter membrane protein |
| RA | 4,094,305 | A→G | 22.2% | T420A (ACC→GCC) | PP_3602 → | 2,5‑dioxovalerate dehydrogenase |
| RA | 4,110,826 | A→G | 26.7% | L868L (CTA→CTG) | PP_3616 → | membrane protein |
| RA | 4,117,163 | G→A | 12.6% | W88* (TGG→TGA) | iorA‑II → | isoquinoline 1‑oxidoreductase subunit alpha |
| RA | 4,162,143 | T→C | 17.8% | intergenic (‑43/+34) | PP_3663 ← / ← pssA | GGDEF domain‑containing protein/CDP‑diacylglycerol‑‑serine O‑phosphatidyltransferase |
| RA | 4,164,734 | A→T | 16.7% | intergenic (+40/+77) | PP_3665 → / ← PP_3666 | AraC family transcriptional regulator/MHS family metabolite MFS transporter |
| RA | 4,164,735 | A→T | 16.7% | intergenic (+41/+76) | PP_3665 → / ← PP_3666 | AraC family transcriptional regulator/MHS family metabolite MFS transporter |
| RA | 4,171,851 | T→A | 13.8% | T106S (ACG→TCG) | PP_3670 ← | DMT superfamily permease |
| RA | 4,171,856 | T→A | 14.3% | E104V (GAG→GTG) | PP_3670 ← | DMT superfamily permease |
| RA | 4,348,749 | A→G | 41.2% | intergenic (‑70/+404) | PP_3820 ← / ← galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| RA | 4,399,566 | A→T | 30.9% | I123N (ATT→AAT) | PP_3878 ← | minor capsid protein C |
| RA | 4,399,571 | T→C | 30.8% | E121E (GAA→GAG) | PP_3878 ← | minor capsid protein C |
| RA | 4,501,014 | C→A | 14.8% | G31V (GGG→GTG) | PP_3989 ← | DNA‑cytosine methyltransferase |
| RA | 4,520,498 | A→T | 21.1% | intergenic (+45/+27) | cspD → / ← icd | DNA replication inhibitor/NADP(+)‑specific isocitrate dehydrogenase |
| RA | 4,520,508 | A→G | 21.1% | intergenic (+55/+17) | cspD → / ← icd | DNA replication inhibitor/NADP(+)‑specific isocitrate dehydrogenase |
| JC | 4,712,487 | Δ33 bp | 38.7% | coding (673‑705/2115 nt) | PP_4171 → | hypothetical protein |
| RA | 4,740,884 | C→G | 17.4% | intergenic (+75/+677) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,273:1 | +C | 66.7% | intergenic (+464/+288) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,274 | A→C | 33.3% | intergenic (+465/+287) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,275 | A→G | 60.4% | intergenic (+466/+286) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,277 | C→T | 100% | intergenic (+468/+284) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,280 | C→T | 100% | intergenic (+471/+281) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,283 | C→G | 100% | intergenic (+474/+278) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,285 | 2 bp→CT | 100% | intergenic (+476/+275) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,759,592 | C→T | 18.2% | T79T (ACG→ACA) | pvdP ← | pyoverdine biosynthesis‑like protein |
| RA | 4,783,733 | A→G | 12.1% | L1209P (CTG→CCG) | pvdJ ← | non‑ribosomal peptide synthetase |
| RA | 4,783,736 | C→T | 12.1% | R1208Q (CGG→CAG) | pvdJ ← | non‑ribosomal peptide synthetase |
| RA | 5,130,031 | A→T | 13.8% | L474Q (CTG→CAG) | recQ ← | ATP‑dependent DNA 3'‑5' helicase |
| RA | 5,173,292 | T→C | 15.4% | intergenic (‑285/+47) | fadD‑I ← / ← fadD‑II | long‑chain‑fatty acid‑‑CoA ligase/long‑chain‑fatty acid‑‑CoA ligase |
| RA | 5,173,295 | G→C | 14.8% | intergenic (‑288/+44) | fadD‑I ← / ← fadD‑II | long‑chain‑fatty acid‑‑CoA ligase/long‑chain‑fatty acid‑‑CoA ligase |
| RA | 5,173,296 | G→C | 14.8% | intergenic (‑289/+43) | fadD‑I ← / ← fadD‑II | long‑chain‑fatty acid‑‑CoA ligase/long‑chain‑fatty acid‑‑CoA ligase |
| RA | 5,173,299 | G→A | 12.5% | intergenic (‑292/+40) | fadD‑I ← / ← fadD‑II | long‑chain‑fatty acid‑‑CoA ligase/long‑chain‑fatty acid‑‑CoA ligase |
| RA | 5,183,577 | T→C | 14.8% | K69E (AAG→GAG) | PP_4563 ← | hypothetical protein |
| RA | 5,194,935 | T→G | 19.1% | intergenic (+29/+24) | PP_4574 → / ← PP_4575 | hypothetical protein/urea amidolyase‑like protein |
| RA | 5,194,936 | C→A | 18.3% | intergenic (+30/+23) | PP_4574 → / ← PP_4575 | hypothetical protein/urea amidolyase‑like protein |
| RA | 5,212,535 | A→G | 20.0% | intergenic (+51/+43) | PP_4593 → / ← PP_4594 | hypothetical protein/cystathionine gamma‑synthase |
| RA | 5,212,539 | T→G | 20.0% | intergenic (+55/+39) | PP_4593 → / ← PP_4594 | hypothetical protein/cystathionine gamma‑synthase |
| RA | 5,212,540 | C→T | 21.1% | intergenic (+56/+38) | PP_4593 → / ← PP_4594 | hypothetical protein/cystathionine gamma‑synthase |
| RA | 5,268,815 | A→G | 10.2% | A451A (GCA→GCG) | PP_4643 → | xanthine/uracil permease family protein |
| RA | 5,269,306 | C→A | 10.0% | G361C (GGC→TGC) | radA ← | DNA repair enzyme |
| RA | 5,381,315 | T→C | 18.8% | intergenic (+32/+33) | bamE → / ← PP_4732 | outer membrane protein assembly factor BamE/hypothetical protein |
| RA | 5,381,316 | T→A | 18.8% | intergenic (+33/+32) | bamE → / ← PP_4732 | outer membrane protein assembly factor BamE/hypothetical protein |
| RA | 5,381,317 | G→A | 18.8% | intergenic (+34/+31) | bamE → / ← PP_4732 | outer membrane protein assembly factor BamE/hypothetical protein |
| RA | 5,450,969 | C→A | 15.2% | I100I (ATC→ATA) | corC → | Co(2+)/Mg(2+)efflux heat shock protein |
| RA | 5,559,994 | T→A | 11.1% | Q185L (CAG→CTG) | hisZ ← | ATP phosphoribosyltransferase regulatory subunit |
| RA | 5,569,322 | G→A | 15.4% | L44L (CTG→TTG) | tsaE ← | ATPase |
| RA | 5,653,045 | C→A | 13.8% | intergenic (‑95/+66) | PP_4961 ← / ← PP_4962 | lipoprotein/hypothetical protein |
| JC | 5,657,310 | +GACGAT | 50.6% | coding (436/1998 nt) | tktA ← | transketolase A |
| RA | 5,675,706 | G→A | 13.8% | A96V (GCC→GTC) | yceJ ← | iron‑regulated cytochrome b561 |
| RA | 5,725,708 | C→G | 9.7% | P438P (CCG→CCC) | opgH ← | glucans biosynthesis glucosyltransferase H |
| RA | 5,790,193 | G→A | 14.1% | intergenic (+16/+52) | ynfM → / ← PP_5073 | efflux transporter/hypothetical protein |
| RA | 5,808,040 | A→G | 15.9% | intergenic (+119/+36) | mrcA → / ← maeB | penicillin‑insensitive transglycosylase/penicillin‑sensitive transpeptidase/malic enzyme B |
| RA | 5,808,041 | T→C | 20.3% | intergenic (+120/+35) | mrcA → / ← maeB | penicillin‑insensitive transglycosylase/penicillin‑sensitive transpeptidase/malic enzyme B |
| RA | 5,808,042 | G→A | 17.5% | intergenic (+121/+34) | mrcA → / ← maeB | penicillin‑insensitive transglycosylase/penicillin‑sensitive transpeptidase/malic enzyme B |
| RA | 5,808,043 | C→T | 16.8% | intergenic (+122/+33) | mrcA → / ← maeB | penicillin‑insensitive transglycosylase/penicillin‑sensitive transpeptidase/malic enzyme B |
| RA | 5,815,587 | C→T | 12.8% | intergenic (+15/+76) | PP_5090 → / ← PP_5091 | cell division protein/membrane protein |
| RA | 5,815,592 | G→T | 10.0% | intergenic (+20/+71) | PP_5090 → / ← PP_5091 | cell division protein/membrane protein |
| RA | 5,815,595 | A→C | 11.9% | intergenic (+23/+68) | PP_5090 → / ← PP_5091 | cell division protein/membrane protein |
| RA | 5,815,600 | A→G | 13.1% | intergenic (+28/+63) | PP_5090 → / ← PP_5091 | cell division protein/membrane protein |
| RA | 5,897,462 | T→C | 24.5% | intergenic (‑18/+12) | sbp‑II ← / ← PP_5172 | sulfate ABC transporter substrate‑binding protein/hypothetical protein |
| RA | 5,903,220 | G→T | 17.8% | intergenic (‑128/‑140) | PP_5175 ← / → PP_5176 | HlyD family secretion protein/hypothetical protein |
| RA | 5,903,221 | A→C | 17.9% | intergenic (‑129/‑139) | PP_5175 ← / → PP_5176 | HlyD family secretion protein/hypothetical protein |
| RA | 5,988,961 | T→C | 34.8% | intergenic (+199/‑347) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,988,967 | Δ1 bp | 34.8% | intergenic (+205/‑341) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,997,245:1 | +G | 21.7% | intergenic (‑158/+42) | PP_5252 ← / ← PP_5253 | hypothetical protein/arylesterase |
| RA | 5,997,250 | Δ1 bp | 21.7% | intergenic (‑163/+37) | PP_5252 ← / ← PP_5253 | hypothetical protein/arylesterase |
| RA | 6,078,789 | G→T | 14.8% | L165M (CTG→ATG) | PP_5330 ← | MFS transporter |
| RA | 6,172,551 | G→T | 12.9% | A196E (GCG→GAG) | PP_5410 ← | DeoR family transcriptional regulator |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_002947 | 171396–172964 | 176266–172972 | 9–4871 | 2 [1] | [0] 3 | [PP_16SA]–[PP_5SA] | [PP_16SA],PP_23SA,[PP_5SA] |
| * | * | ÷ | NC_002947 | 176688–178394 | 181686–178402 | 9–4999 | 2 [1] | [1] 2 | PP_16SB–[PP_r01] | PP_16SB,PP_23SB,[PP_r01] |
| * | * | ÷ | NC_002947 | 2197191 | 2197209 | 19 | 3 [1] | [1] 2 | PP_1942 | LysR family transcriptional regulator |
| * | * | ÷ | NC_002947 | 2619372 | 2619395 | 24 | 2 [1] | [0] 2 | PP_2292/PP_2293 | hypothetical protein/DNA maturase B |
| * | * | ÷ | NC_002947 | 2812584 | 2812594 | 11 | 3 [1] | [0] 2 | rplT | 50S ribosomal protein L20 |
| * | * | ÷ | NC_002947 | 2858627 | 2858695 | 69 | 2 [1] | [1] 2 | [PP_2510] | [PP_2510] |
| * | * | ÷ | NC_002947 | 2991627 | 2991701 | 75 | 2 [1] | [1] 2 | hcpC‑I | hemolysin‑coregulated protein |
| * | * | ÷ | NC_002947 | 4808211 | 4808218 | 8 | 3 [1] | [0] 8 | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 426144 | 30 (1.550) | 4 (0.220) | 4/246 | NT | 11.7% | coding (1658/2433 nt) | PP_0350 | ferrichrome‑iron receptor |
| ? | NC_002947 | = 426167 | 32 (1.740) | coding (1635/2433 nt) | PP_0350 | ferrichrome‑iron receptor | |||||
| * | ? | NC_002947 | = 445088 | 19 (0.980) | 5 (0.330) | 4/204 | NT | 20.4% | intergenic (+58/‑230) | PP_0367/PP_0368 | hypothetical protein/acyl‑CoA dehydrogenase |
| ? | NC_002947 | = 445127 | 24 (1.570) | intergenic (+97/‑191) | PP_0367/PP_0368 | hypothetical protein/acyl‑CoA dehydrogenase | |||||
| * | ? | NC_002947 | = 742614 | NA (NA) | 7 (0.380) | 6/248 | NT | NA | coding (712/1422 nt) | PP_0635 | group II intron‑encoding maturase |
| ? | NC_002947 | = 1426852 | NA (NA) | coding (743/1422 nt) | PP_1250 | group II intron‑encoding maturase | |||||
| * | ? | NC_002947 | = 786605 | 36 (1.860) | 3 (0.170) | 3/236 | NT | 9.9% | intergenic (+24/‑281) | PP_0673/ettA | hypothetical protein/ADP/ATP ratio sensor/translation inhibitor |
| ? | NC_002947 | = 786691 | 22 (1.250) | intergenic (+110/‑195) | PP_0673/ettA | hypothetical protein/ADP/ATP ratio sensor/translation inhibitor | |||||
| * | ? | NC_002947 | 836205 = | 22 (1.140) | 9 (0.510) | 6/236 | NT | 35.9% | intergenic (‑124/+53) | PP_0718/ychF | sulfate transporter/ribosome‑associated potassium‑dependent ATP/GTPase |
| ? | NC_002947 | 836237 = | 12 (0.680) | intergenic (‑156/+21) | PP_0718/ychF | sulfate transporter/ribosome‑associated potassium‑dependent ATP/GTPase | |||||
| * | ? | NC_002947 | 867938 = | 21 (1.090) | 5 (0.290) | 5/228 | NT | 20.6% | intergenic (+33/+144) | PP_0750/mqo‑I | hypothetical protein/malate:quinone oxidoreductase |
| ? | NC_002947 | 867998 = | 20 (1.170) | intergenic (+93/+84) | PP_0750/mqo‑I | hypothetical protein/malate:quinone oxidoreductase | |||||
| * | ? | NC_002947 | 1642089 = | 10 (0.520) | 3 (0.160) | 3/250 | NT | 20.9% | coding (126/393 nt) | PP_1442 | hypothetical protein |
| ? | NC_002947 | 1642134 = | 13 (0.690) | coding (81/393 nt) | PP_1442 | hypothetical protein | |||||
| * | ? | NC_002947 | = 1746298 | 8 (0.410) | 3 (0.160) | 3/248 | NT | 23.4% | coding (210/387 nt) | PP_1544 | hypothetical protein |
| ? | NC_002947 | = 1746325 | 12 (0.650) | coding (183/387 nt) | PP_1544 | hypothetical protein | |||||
| * | ? | NC_002947 | = 1811479 | 24 (1.240) | 3 (0.190) | 3/212 | NT | 12.9% | intergenic (+44/+84) | ispD/PP_1615 | 2‑C‑methyl‑D‑erythritol 4‑phosphate cytidylyltransferase/LysR family transcriptional regulator |
| ? | NC_002947 | = 1811513 | 21 (1.320) | intergenic (+78/+50) | ispD/PP_1615 | 2‑C‑methyl‑D‑erythritol 4‑phosphate cytidylyltransferase/LysR family transcriptional regulator | |||||
| * | ? | NC_002947 | 2047296 = | 11 (0.570) | 4 (0.220) | 4/248 | NT | 27.1% | coding (768/1197 nt) | PP_1820 | benzoate transport protein |
| ? | NC_002947 | 2047345 = | 11 (0.590) | coding (719/1197 nt) | PP_1820 | benzoate transport protein | |||||
| * | ? | NC_002947 | = 2050638 | 11 (0.570) | 4 (0.290) | 4/184 | NT | 32.2% | intergenic (‑88/+87) | PP_1824/PP_1825 | Smr domain‑containing protein/hypothetical protein |
| ? | NC_002947 | = 2050674 | 9 (0.660) | intergenic (‑124/+51) | PP_1824/PP_1825 | Smr domain‑containing protein/hypothetical protein | |||||
| * | ? | NC_002947 | 2100003 = | 10 (0.520) | 8 (0.500) | 4/212 | NT | 45.5% | intergenic (‑71/‑134) | PP_1875/PP_1876 | two‑component system sensor histidine kinase/response regulator/AAA family ATP/GTP‑binding protein |
| ? | NC_002947 | 2100098 = | 11 (0.690) | intergenic (‑166/‑39) | PP_1875/PP_1876 | two‑component system sensor histidine kinase/response regulator/AAA family ATP/GTP‑binding protein | |||||
| * | ? | NC_002947 | 2112769 = | 16 (0.830) | 4 (0.220) | 4/246 | NT | 20.4% | coding (1560/4899 nt) | PP_1882 | membrane protein |
| ? | NC_002947 | 2112789 = | 16 (0.870) | coding (1540/4899 nt) | PP_1882 | membrane protein | |||||
| * | ? | NC_002947 | 2295818 = | 11 (0.570) | 3 (0.190) | 3/210 | NT | 26.2% | intergenic (+21/+112) | PP_5496/PP_2023 | hypothetical protein/glutathione S‑transferase family protein |
| ? | NC_002947 | 2295903 = | 8 (0.510) | intergenic (+106/+27) | PP_5496/PP_2023 | hypothetical protein/glutathione S‑transferase family protein | |||||
| * | ? | NC_002947 | 2301539 = | 17 (0.880) | 3 (0.170) | 3/230 | NT | 15.7% | intergenic (‑140/‑191) | sbcD/PP_5497 | exonuclease subunit SbcD/rhs repeat‑associated core domain‑containing protein |
| ? | NC_002947 | 2301624 = | 17 (0.990) | intergenic (‑225/‑106) | sbcD/PP_5497 | exonuclease subunit SbcD/rhs repeat‑associated core domain‑containing protein | |||||
| * | ? | NC_002947 | 2310567 = | 10 (0.520) | 3 (0.170) | 3/238 | NT | 22.0% | coding (275/1311 nt) | PP_2033 | hypothetical protein |
| ? | NC_002947 | 2310624 = | 12 (0.670) | coding (332/1311 nt) | PP_2033 | hypothetical protein | |||||
| * | ? | NC_002947 | = 2794965 | 15 (0.780) | 6 (0.350) | 6/232 | NT | 28.9% | intergenic (+30/+82) | PP_2447/puuB | hypothetical protein/gamma‑glutamylputrescine oxidase |
| ? | NC_002947 | = 2795016 | 16 (0.920) | intergenic (+81/+31) | PP_2447/puuB | hypothetical protein/gamma‑glutamylputrescine oxidase | |||||
| * | ? | NC_002947 | 3387807 = | 10 (0.520) | 3 (0.170) | 3/242 | NT | 23.6% | coding (545/795 nt) | PP_2989 | short‑chain dehydrogenase/reductase family oxidoreductase |
| ? | NC_002947 | 3387849 = | 10 (0.550) | coding (587/795 nt) | PP_2989 | short‑chain dehydrogenase/reductase family oxidoreductase | |||||
| * | ? | NC_002947 | 3483915 = | 11 (0.570) | 5 (0.270) | 5/250 | NT | 37.5% | coding (2052/3804 nt) | PP_3091 | membrane protein |
| ? | NC_002947 | 3483952 = | 6 (0.320) | coding (2015/3804 nt) | PP_3091 | membrane protein | |||||
| * | ? | NC_002947 | = 3607987 | 18 (0.930) | 4 (0.220) | 4/244 | NT | 17.0% | coding (1173/2265 nt) | PP_3182 | GGDEF domain‑containing protein |
| ? | NC_002947 | = 3608006 | 22 (1.200) | coding (1154/2265 nt) | PP_3182 | GGDEF domain‑containing protein | |||||
| * | ? | NC_002947 | = 4042090 | 24 (1.240) | 3 (0.160) | 3/250 | NT | 12.4% | coding (134/852 nt) | PP_3563 | hypothetical protein |
| ? | NC_002947 | = 4042115 | 19 (1.010) | coding (159/852 nt) | PP_3563 | hypothetical protein | |||||
| * | ? | NC_002947 | = 4586100 | 3 (0.160) | 5 (0.370) | 5/182 | NT | 55.2% | intergenic (+139/+78) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947 | = 4586128 | 6 (0.440) | intergenic (+167/+50) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||
| * | ? | NC_002947 | = 4588043 | 24 (1.240) | 4 (0.230) | 4/230 | NT | 14.4% | intergenic (‑183/‑139) | PP_4063/ivd | long‑chain fatty acid‑‑CoA ligase/isovaleryl‑CoA dehydrogenase |
| ? | NC_002947 | = 4588104 | 26 (1.510) | intergenic (‑244/‑78) | PP_4063/ivd | long‑chain fatty acid‑‑CoA ligase/isovaleryl‑CoA dehydrogenase | |||||
| * | ? | NC_002947 | 4808219 = | 0 (0.000) | 6 (0.430) | 4/188 | NT | 57.1% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5988991 | 9 (0.640) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 4886209 | 15 (0.780) | 7 (0.470) | 6/200 | NT | 32.9% | intergenic (+43/+80) | PP_4295/PP_4296 | TetR family transcriptional regulator/hypothetical protein |
| ? | NC_002947 | = 4886238 | 17 (1.140) | intergenic (+72/+51) | PP_4295/PP_4296 | TetR family transcriptional regulator/hypothetical protein | |||||
| * | ? | NC_002947 | 5162618 = | 27 (1.400) | 5 (0.320) | 5/206 | NT | 26.0% | intergenic (+93/+108) | PP_4544/PP_4545 | hypothetical protein/beta‑ketodecanoyl‑ACP synthase |
| ? | NC_002947 | 5162702 = | 7 (0.450) | intergenic (+177/+24) | PP_4544/PP_4545 | hypothetical protein/beta‑ketodecanoyl‑ACP synthase | |||||
| * | ? | NC_002947 | = 5205221 | 20 (1.030) | 5 (0.270) | 5/250 | NT | 23.1% | intergenic (+64/+51) | PP_4585/PP_4586 | TrmH family RNA methyltransferase/hypothetical protein |
| ? | NC_002947 | = 5205267 | 14 (0.750) | intergenic (+110/+5) | PP_4585/PP_4586 | TrmH family RNA methyltransferase/hypothetical protein | |||||
| * | ? | NC_002947 | = 5671689 | 22 (1.140) | 4 (0.250) | 4/210 | NT | 18.7% | intergenic (+57/‑113) | PP_4978/PP_4979 | hypothetical protein/substrate‑binding protein |
| ? | NC_002947 | = 5671726 | 17 (1.080) | intergenic (+94/‑76) | PP_4978/PP_4979 | hypothetical protein/substrate‑binding protein | |||||
| * | ? | NC_002947 | = 5692618 | 20 (1.030) | 8 (0.450) | 5/236 | NT | 27.0% | intergenic (+31/‑139) | PP_4994/PP_4995 | hypothetical protein/exopolysaccharide biosynthesis protein |
| ? | NC_002947 | = 5692680 | 25 (1.420) | intergenic (+93/‑77) | PP_4994/PP_4995 | hypothetical protein/exopolysaccharide biosynthesis protein | |||||
| * | ? | NC_002947 | = 5734097 | 21 (1.090) | 4 (0.230) | 4/234 | NT | 17.0% | intergenic (‑67/+90) | proY/hutH | proline (histidine) APC transporter/histidine ammonia‑lyase |
| ? | NC_002947 | = 5734152 | 20 (1.140) | intergenic (‑122/+35) | proY/hutH | proline (histidine) APC transporter/histidine ammonia‑lyase | |||||
| * | ? | NC_002947 | = 5816927 | 8 (0.410) | 5 (0.300) | 4/222 | NT | 40.2% | intergenic (+57/+72) | PP_5092/pilT | NLP/P60 protein/twitching motility protein |
| ? | NC_002947 | = 5816954 | 8 (0.480) | intergenic (+84/+45) | PP_5092/pilT | NLP/P60 protein/twitching motility protein | |||||
| * | ? | NC_002947 | = 5877063 | 31 (1.600) | 4 (0.250) | 4/210 | NT | 12.3% | intergenic (+29/+76) | rpiA/PP_5151 | ribose‑5‑phosphate isomerase A/hypothetical protein |
| ? | NC_002947 | = 5877097 | 32 (2.040) | intergenic (+63/+42) | rpiA/PP_5151 | ribose‑5‑phosphate isomerase A/hypothetical protein | |||||
| * | ? | NC_002947 | 6000957 = | 30 (1.550) | 6 (0.310) | 6/256 | NT | 16.5% | intergenic (+8/+101) | PP_5256/amaA | cyclic nucleotide‑binding protein/L‑pipecolate oxidase |
| ? | NC_002947 | 6001055 = | 31 (1.620) | intergenic (+106/+3) | PP_5256/amaA | cyclic nucleotide‑binding protein/L‑pipecolate oxidase | |||||
| * | ? | NC_002947 | = 6022690 | 19 (0.980) | 4 (0.220) | 4/246 | NT | 16.3% | coding (842/1293 nt) | PP_5273 | oxidoreductase |
| ? | NC_002947 | = 6022719 | 23 (1.250) | coding (871/1293 nt) | PP_5273 | oxidoreductase | |||||
| * | ? | NC_002947 | = 6080223 | 24 (1.240) | 4 (0.220) | 4/246 | NT | 14.6% | coding (111/897 nt) | PP_5332 | hypothetical protein |
| ? | NC_002947 | = 6080255 | 24 (1.300) | coding (143/897 nt) | PP_5332 | hypothetical protein | |||||