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 | 195,559 | C→A | 21.5% | T355T (ACC→ACA) | PP_0168 → | putative surface adhesion protein |
| RA | 195,628 | C→T | 13.6% | D378D (GAC→GAT) | PP_0168 → | putative surface adhesion protein |
| RA | 195,629 | A→G | 13.6% | T379A (ACC→GCC) | PP_0168 → | putative surface adhesion protein |
| RA | 195,634 | C→T | 42.7% | T380T (ACC→ACT) | PP_0168 → | putative surface adhesion protein |
| RA | 196,306 | T→C | 11.7% | N604N (AAT→AAC) | PP_0168 → | putative surface adhesion protein |
| RA | 196,327 | A→C | 12.8% | T611T (ACA→ACC) | PP_0168 → | putative surface adhesion protein |
| RA | 196,351 | C→G | 13.9% | T619T (ACC→ACG) | PP_0168 → | putative surface adhesion protein |
| RA | 196,390 | T→C | 14.5% | D632D (GAT→GAC) | PP_0168 → | putative surface adhesion protein |
| RA | 197,032 | C→T | 7.0% | T846T (ACC→ACT) | PP_0168 → | putative surface adhesion protein |
| RA | 197,089 | T→C | 12.9% | N865N (AAT→AAC) | PP_0168 → | putative surface adhesion protein |
| RA | 197,179 | A→G | 7.9% | V895V (GTA→GTG) | PP_0168 → | putative surface adhesion protein |
| RA | 197,185 | C→T | 6.2% | T897T (ACC→ACT) | PP_0168 → | putative surface adhesion protein |
| RA | 197,551 | C→G | 11.0% | T1019T (ACC→ACG) | PP_0168 → | putative surface adhesion protein |
| RA | 197,572 | G→A | 15.2% | K1026K (AAG→AAA) | PP_0168 → | putative surface adhesion protein |
| RA | 197,590 | T→C | 15.5% | D1032D (GAT→GAC) | PP_0168 → | putative surface adhesion protein |
| RA | 197,632 | T→C | 19.1% | T1046T (ACT→ACC) | PP_0168 → | putative surface adhesion protein |
| RA | 197,695 | G→C | 5.6% | T1067T (ACG→ACC) | PP_0168 → | putative surface adhesion protein |
| RA | 278,742:1 | +A | 100% | intergenic (‑237/+77) | PP_0224 ← / ← sctC | DszC family monooxygenase/sulfur compound ABC transporter ATP‑binding protein |
| RA | 284,586 | T→A | 22.6% | intergenic (+33/+30) | betT‑II → / ← atsK | choline/carnitine/betaine transporter/alpha‑ketoglutarate‑dependent sulfonate dioxygenase |
| RA | 284,587 | T→A | 18.9% | intergenic (+34/+29) | betT‑II → / ← atsK | choline/carnitine/betaine transporter/alpha‑ketoglutarate‑dependent sulfonate dioxygenase |
| RA | 307,865:1 | +C | 100% | intergenic (+880/‑989) | hslO → / → PP_0254 | molecular chaperone HslO/hypothetical protein |
| 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 | 359,702 | A→C | 17.8% | intergenic (+62/+58) | gbdR → / ← PP_0299 | AraC family transcriptional regulator/hypothetical protein |
| RA | 365,989 | A→T | 6.8% | N86Y (AAT→TAT) | cdhR → | HTH‑type transcriptional regulator CdhR |
| RA | 441,237 | C→G | 16.4% | L40V (CTG→GTG) | bioF → | 8‑amino‑7‑oxononanoate synthase |
| 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 | 550,549 | C→G | 5.5% | intergenic (+30/‑112) | tufB → / → rpsJ | elongation factor Tu‑B/30S ribosomal protein S10 |
| RA | 596,131 | A→T | 6.2% | L8* (TTG→TAG) | PP_0506 ← | ABC transporter permease |
| RA | 597,618 | A→G | 6.2% | T15A (ACC→GCC) | PP_0509 → | hypothetical protein |
| RA | 629,271 | G→A | 5.9% | C309C (TGC→TGT) | eutB ← | ethanolamine ammonia‑lyase subunit alpha |
| RA | 648,287 | A→C | 10.2% | intergenic (+56/+35) | acoR → / ← accC | acetoin catabolism regulatory protein/acetyl‑CoA carboxylase biotin carboxylase subunit |
| RA | 648,289 | A→T | 10.5% | intergenic (+58/+33) | acoR → / ← accC | acetoin catabolism regulatory protein/acetyl‑CoA carboxylase biotin carboxylase subunit |
| RA | 648,291 | G→T | 9.3% | intergenic (+60/+31) | acoR → / ← accC | acetoin catabolism regulatory protein/acetyl‑CoA carboxylase biotin carboxylase subunit |
| RA | 648,301 | C→T | 10.1% | intergenic (+70/+21) | acoR → / ← accC | acetoin catabolism regulatory protein/acetyl‑CoA carboxylase biotin carboxylase subunit |
| RA | 674,863 | G→A | 5.9% | Q41* (CAG→TAG) | PP_0576 ← | lipoprotein |
| RA | 699,722 | A→G | 50.5% | intergenic (+115/‑129) | PP_t06 → / → PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| RA | 744,120 | T→C | 5.8% | P72P (CCA→CCG) | PP_0636 ← | cold shock DNA‑binding domain‑containing protein |
| RA | 775,602 | C→T | 7.5% | R81W (CGG→TGG) | PP_0667 → | ECF family RNA polymerase sigma‑70 factor |
| RA | 971,159 | T→C | 5.6% | Y336Y (TAT→TAC) | tgt → | queuine tRNA‑ribosyltransferase |
| RA | 1,070,246:1 | +G | 76.5% | 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 | 76.5% | intergenic (+46/+96) | aroP‑I → / ← PP_0928 | aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein |
| RA | 1,070,260 | G→C | 21.2% | intergenic (+60/+82) | aroP‑I → / ← PP_0928 | aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein |
| RA | 1,070,263 | G→C | 19.0% | intergenic (+63/+79) | aroP‑I → / ← PP_0928 | aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein |
| RA | 1,126,645:1 | +C | 100% | intergenic (‑99/+50) | tdcG‑II ← / ← gcvP‑I | L‑serine dehydratase/glycine dehydrogenase |
| RA | 1,135,044 | C→A | 5.7% | V99L (GTG→TTG) | gltS ← | glutamate:sodium symporter |
| RA | 1,156,731 | G→A | 5.2% | L73L (CTG→CTA) | yihS → | aldose‑ketose isomerase |
| RA | 1,168,983 | T→C | 7.1% | K476R (AAG→AGG) | leuA ← | 2‑isopropylmalate synthase |
| RA | 1,298,952 | G→A | 5.0% | P409L (CCG→CTG) | PP_1134 ← | hypothetical protein |
| RA | 1,320,890 | A→C | 13.6% | L614R (CTG→CGG) | PP_1154 ← | sensory box protein |
| RA | 1,327,121 | C→T | 57.5% | intergenic (+97/‑196) | PP_16SE → / → PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| RA | 1,383,549 | A→T | 5.6% | Y494* (TAT→TAA) | proS ← | proline‑‑tRNA ligase |
| RA | 1,476,522 | G→C | 5.6% | E195D (GAG→GAC) | PP_1290 → | polysaccharide deacetylase family protein |
| RA | 1,481,355 | C→T | 7.1% | G128D (GGC→GAC) | rhlB ← | ATP‑dependent RNA helicase RhlB |
| RA | 1,498,662 | C→T | 6.0% | L197L (CTG→TTG) | trpS → | tryptophan‑‑tRNA ligase |
| RA | 1,499,480 | 2 bp→AC | 100% | intergenic (+57/‑106) | trpS → / → zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
| RA | 1,555,811 | C→T | 100% | M1M (ATG→ATA) † | PP_1366 ← | transcriptional regulator MvaT |
| RA | 1,573,378 | C→T | 5.3% | Q46* (CAG→TAG) | pcaD → | 3‑oxoadipate enol‑lactonase |
| RA | 1,576,427 | G→A | 6.6% | S18S (TCC→TCT) | galP‑II ← | porin‑like protein |
| RA | 1,591,987 | T→G | 6.4% | intergenic (‑94/‑109) | PP_1395 ← / → PP_1396 | AraC family transcriptional regulator/hypothetical protein |
| RA | 1,593,718 | C→A | 5.9% | A29S (GCT→TCT) | PP_1399 ← | hypothetical protein |
| RA | 1,628,091 | G→A | 5.6% | L68L (CTG→CTA) | mucA → | sigma factor AlgU negative regulator |
| RA | 1,662,778 | G→A | 6.3% | L302L (CTG→CTA) | purT → | phosphoribosylglycinamide formyltransferase |
| RA | 1,687,893 | A→G | 6.3% | L204P (CTG→CCG) | ydcU ← | polyamine ABC transporter permease |
| RA | 1,700,551 | G→A | 6.5% | D31N (GAC→AAC) | prfB → | peptide chain release factor 2 |
| JC | 1,780,067 | Δ62 bp | 43.4% | intergenic (+26/+19) | PP_1587 → / ← dapC | NhaP‑type Na+(K+)/H+ antiporter/N‑succinyl‑L,L‑diaminopimelate aminotransferase |
| RA | 1,810,335 | T→G | 14.1% | intergenic (+96/‑73) | eno → / → ftsB | enolase/cell division protein |
| RA | 1,810,336 | C→A | 12.7% | intergenic (+97/‑72) | eno → / → ftsB | enolase/cell division protein |
| RA | 1,828,102 | A→T | 7.7% | E319V (GAG→GTG) | recA → | recombinase RecA |
| 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 | 2,017,246 | Δ1 bp | 100% | intergenic (‑854/‑1480) | PP_1795 ← / → PP_1797 | hypothetical protein/HlyD family secretion protein |
| RA | 2,034,964 | A→T | 8.7% | intergenic (+780/+661) | pgi‑I → / ← PP_5477 | glucose 6‑phosphate isomerase/hypothetical protein |
| RA | 2,063,192 | C→A | 17.2% | intergenic (+49/‑158) | PP_1838 → / → PP_1839 | membrane protein/hypothetical protein |
| RA | 2,303,163 | T→G | 20.0% | intergenic (‑248/+47) | PP_mr30 ← / ← PP_2027 | C4 ncRNA/hypothetical protein |
| RA | 2,456,997 | G→T | 7.7% | R23L (CGC→CTC) | PP_2150 → | thiamine biosynthesis lipoprotein |
| RA | 2,732,582 | T→G | 17.8% | V640G (GTG→GGG) | polB → | DNA polymerase II |
| RA | 2,793,069 | T→C | 5.6% | V44A (GTG→GCG) | PP_2445 → | membrane protein |
| RA | 2,835,297 | Δ1 bp | 5.8% | coding (121/1512 nt) | aldA ← | aldehyde dehydrogenase |
| RA | 2,890,134 | G→A | 5.8% | G381D (GGC→GAC) | gabP‑II → | gamma‑aminobutyrate permease |
| RA | 2,931,178 | C→T | 9.3% | R975H (CGT→CAT) | PP_2566 ← | leucine‑rich repeat‑containing protein |
| RA | 2,951,341 | A→C | 9.0% | intergenic (‑120/+41) | oguA ← / ← PP_2585 | 8‑oxoguanine deaminase/alpha‑ketoglutaric semialdehyde dehydrogenase |
| JC | 2,957,081 | Δ84 bp | 15.3% | 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 | 3,172,289 | G→A | 5.4% | L187L (CTG→CTA) | PP_2784 → | short‑chain dehydrogenase/reductase family oxidoreductase |
| RA | 3,187,643 | T→A | 6.9% | I420K (ATA→AAA) | actP‑II → | acetate permease |
| RA | 3,224,991 | G→A | 6.5% | T143I (ACC→ATC) | mexT ← | transcriptional regulator MexT |
| RA | 3,285,545 | T→A | 5.2% | N107I (AAC→ATC) | PP_2887 ← | catalase‑like peroxidase |
| RA | 3,328,177 | T→C | 6.0% | Y10C (TAT→TGT) | udg ← | UDP‑glucose 6‑dehydrogenase |
| RA | 3,363,672 | G→A | 5.3% | E70E (GAG→GAA) | PP_2960 → | transcriptional regulator, AraC family |
| RA | 3,370,557 | G→A | 5.5% | intergenic (+477/+84) | tnpC → / ← PP_2968 | TnpA repressor TnpC/high‑affinity nickel/cobalt transporter |
| RA | 3,432,879 | G→T | 5.2% | A71A (GCG→GCT) | PP_3049 → | hypothetical protein |
| RA | 3,432,932 | A→G | 5.3% | K89R (AAG→AGG) | PP_3049 → | hypothetical protein |
| RA | 3,435,400 | G→T | 5.7% | P104P (CCG→CCT) | gpJ → | baseplate/tail fiber protein |
| RA | 3,447,286 | A→C | 34.9% | S18R (AGC→CGC) | PP_5556 → | bacteriophage lysis protein |
| RA | 3,447,291 | T→G | 33.4% | A19A (GCT→GCG) | PP_5556 → | bacteriophage lysis protein |
| RA | 3,513,293 | A→T | 6.4% | D654V (GAC→GTC) | PP_3108 → | rhs family protein |
| RA | 3,531,671 | G→A | 5.4% | R187C (CGC→TGC) | yeaE ← | methylglyoxal reductase |
| RA | 3,678,895 | T→A | 5.3% | Q75L (CAG→CTG) | PP_3243 ← | GNAT family acetyltransferase |
| 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 | 3,951,159 | 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 | 4,001,773 | T→G | 21.0% | intergenic (+90/‑44) | dmoA‑II → / → allE | dimethyl‑sulfide monooxygenase/S‑ureidoglycine aminohydrolase |
| RA | 4,002,682 | A→G | 5.8% | intergenic (+29/‑61) | allE → / → PP_3531 | S‑ureidoglycine aminohydrolase/hypothetical protein |
| RA | 4,002,683 | C→G | 5.6% | intergenic (+30/‑60) | allE → / → PP_3531 | S‑ureidoglycine aminohydrolase/hypothetical protein |
| RA | 4,002,684 | C→T | 5.6% | intergenic (+31/‑59) | allE → / → PP_3531 | S‑ureidoglycine aminohydrolase/hypothetical protein |
| RA | 4,033,926 | T→C | 6.8% | I260V (ATC→GTC) | PP_3556 ← | membrane protein |
| RA | 4,095,482 | A→T | 7.3% | M1E (GTG→GAG) † | PP_3603 ← | GntR family transcriptional regulator |
| RA | 4,158,466 | T→G | 35.2% | L159R (CTG→CGG) | PP_3661 → | membrane protein |
| RA | 4,158,471 | A→C | 46.8% | 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 | 4,324,973 | G→A | 6.5% | intergenic (+231/+36) | pbpG → / ← PP_3795 | murein D‑alanyl‑D‑alanine endopeptidase/hypothetical protein |
| RA | 4,348,812 | A→G | 55.9% | intergenic (‑70/+404) | PP_3820 ← / ← galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| RA | 4,356,305 | T→G | 19.4% | V239G (GTC→GGC) | modC → | molybdate ABC transporter ATP‑binding protein ModC |
| RA | 4,427,440 | A→G | 6.0% | S323G (AGC→GGC) | PP_3920 → | putative Phage integrase |
| RA | 4,442,626 | G→C | 6.3% | F4L (TTC→TTG) | nicP‑II ← | porin‑like protein |
| RA | 4,443,321 | C→T | 7.0% | M256I (ATG→ATA) | nicT ← | metabolite transport protein NicT |
| 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 |
| JC | 4,635,696 | Δ5 bp | 100% | coding (163‑167/639 nt) | uvrY ← | BarA/UvrY two‑componenent system response regulator |
| RA | 4,663,284 | G→A | 6.1% | G681S (GGC→AGC) | nuoG → | NADH‑quinone oxidoreductase subunit G |
| RA | 4,714,386 | C→T | 5.9% | P133S (CCG→TCG) | PP_4172 → | hypothetical 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 | 4,798,315 | C→T | 25.9% | intergenic (‑170/+48) | pvdH ← / ← PP_4224 | diaminobutyrate‑2‑oxoglutarate transaminase/sensor histidine kinase |
| RA | 4,798,317 | G→C | 29.3% | intergenic (‑172/+46) | pvdH ← / ← PP_4224 | diaminobutyrate‑2‑oxoglutarate transaminase/sensor histidine kinase |
| RA | 4,798,320 | G→C | 25.1% | intergenic (‑175/+43) | pvdH ← / ← PP_4224 | diaminobutyrate‑2‑oxoglutarate transaminase/sensor histidine kinase |
| RA | 4,798,322 | A→G | 32.4% | intergenic (‑177/+41) | pvdH ← / ← PP_4224 | diaminobutyrate‑2‑oxoglutarate transaminase/sensor histidine kinase |
| RA | 4,798,330 | C→T | 24.6% | intergenic (‑185/+33) | pvdH ← / ← PP_4224 | diaminobutyrate‑2‑oxoglutarate transaminase/sensor histidine kinase |
| RA | 4,861,310 | C→A | 5.9% | P481P (CCG→CCT) | ligA ← | DNA ligase |
| MC JC | 4,875,480 | Δ756 bp | 100% | coding (1‑756/756 nt) | PP_4283 ← | GntR family transcriptional regulator |
| RA | 4,903,873 | G→A | 8.7% | G29S (GGT→AGT) | PP_4310 → | hydantoin racemase |
| RA | 4,941,232 | G→A | 6.4% | intergenic (‑777/‑1020) | ddlA ← / → PP_4348 | D‑alanine‑‑D‑alanine ligase A/cystathionine beta‑lyase |
| RA | 4,975,286 | G→A | 6.9% | S674F (TCC→TTC) | flgK ← | flagellar hook‑associated protein FlgK |
| JC | 4,982,288 | +GGC | 90.4% | intergenic (‑24/+44) | PP_4387 ← / ← flgE | hypothetical protein/flagellar hook protein FlgE |
| RA | 5,051,174 | C→T | 5.9% | intergenic (‑113/+311) | PP_4451 ← / ← PP_5686 | hypothetical protein/hypothetical protein |
| RA | 5,196,590 | T→G | 19.2% | intergenic (+29/+24) | PP_4574 → / ← PP_4575 | hypothetical protein/urea amidolyase‑like protein |
| RA | 5,214,190 | A→G | 7.9% | intergenic (+51/+43) | PP_4593 → / ← PP_4594 | hypothetical protein/cystathionine gamma‑synthase |
| RA | 5,214,191 | C→A | 7.5% | intergenic (+52/+42) | PP_4593 → / ← PP_4594 | hypothetical protein/cystathionine gamma‑synthase |
| RA | 5,214,194 | T→G | 7.7% | intergenic (+55/+39) | PP_4593 → / ← PP_4594 | hypothetical protein/cystathionine gamma‑synthase |
| RA | 5,214,195 | C→T | 7.7% | intergenic (+56/+38) | PP_4593 → / ← PP_4594 | hypothetical protein/cystathionine gamma‑synthase |
| RA | 5,230,901 | C→G | 13.8% | intergenic (‑140/+36) | PP_4606 ← / ← PP_4607 | ferric siderophore receptor/transmembrane sensor |
| RA | 5,242,876 | A→G | 8.1% | E245E (GAA→GAG) | PP_4618 → | hypothetical protein |
| RA | 5,259,993 | C→T | 6.4% | L289L (CTG→CTA) | PP_4635 ← | trans‑2‑enoyl‑CoA reductase |
| RA | 5,260,091 | T→C | 6.3% | N257D (AAC→GAC) | PP_4635 ← | trans‑2‑enoyl‑CoA reductase |
| RA | 5,396,064 | A→G | 100% | V231A (GTA→GCA) | tphBII ← | 4‑hydroxythreonine‑4‑phosphate dehydrogenase |
| RA | 5,454,427 | A→G | 6.0% | E48G (GAG→GGG) | lnt → | apolipoprotein N‑acyltransferase |
| RA | 5,454,431 | C→G | 5.9% | L49L (CTC→CTG) | lnt → | apolipoprotein N‑acyltransferase |
| RA | 5,508,432 | T→C | 5.1% | A148A (GCT→GCC) | PP_4839 → | iron‑regulated membrane protein |
| RA | 5,512,711 | A→C | 38.4% | Q32P (CAG→CCG) | urtB → | urea ABC transporter permease |
| RA | 5,512,720 | T→G | 30.7% | L35R (CTG→CGG) | urtB → | urea ABC transporter permease |
| JC | 5,558,423 | +GCC | 91.8% | intergenic (‑84/+87) | PP_4887 ← / ← PP_4888 | hypothetical protein/methyl‑accepting chemotaxis transducer |
| RA | 5,567,015 | T→C | 5.4% | H16R (CAC→CGC) | hflX ← | GTPase HflX |
| RA | 5,658,451 | C→A | 24.9% | intergenic (‑91/+61) | epd ← / ← tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| 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 | 5,829,485 | T→C | 6.0% | A118A (GCA→GCG) | ygdD ← | inner membrane protein |
| RA | 5,900,593 | C→G | 33.1% | intergenic (‑178/+56) | PP_5172 ← / ← PP_5173 | hypothetical protein/RND family transporter |
| RA | 5,900,598 | C→G | 30.5% | intergenic (‑183/+51) | PP_5172 ← / ← PP_5173 | hypothetical protein/RND family transporter |
| RA | 5,921,191 | T→G | 14.2% | intergenic (+66/+29) | ygiF → / ← PP_5188 | thiamine triphosphatase/AsnC/Lrp family transcriptional regulator |
| RA | 5,922,874 | C→T | 6.9% | A215A (GCC→GCT) | PP_5190 → | type II secretion system protein |
| RA | 5,923,041 | A→C | 28.9% | D271A (GAC→GCC) | PP_5190 → | type II secretion system protein |
| RA | 5,991,624 | G→A | 10.3% | intergenic (+103/‑443) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,634 | T→C | 8.8% | intergenic (+113/‑433) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,639 | C→T | 8.8% | intergenic (+118/‑428) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,640 | G→T | 8.0% | intergenic (+119/‑427) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,641 | C→T | 8.6% | intergenic (+120/‑426) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,644 | A→G | 9.8% | intergenic (+123/‑423) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,650 | G→C | 11.3% | intergenic (+129/‑417) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,652 | C→G | 11.4% | intergenic (+131/‑415) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,655 | C→T | 11.4% | intergenic (+134/‑412) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,659 | C→G | 12.7% | intergenic (+138/‑408) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,663 | C→T | 14.3% | intergenic (+142/‑404) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,665 | C→T | 14.3% | intergenic (+144/‑402) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,704 | C→A | 11.4% | intergenic (+183/‑363) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,709 | C→T | 13.6% | intergenic (+188/‑358) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,710 | A→G | 13.6% | intergenic (+189/‑357) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,720 | T→C | 15.2% | intergenic (+199/‑347) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,991,726 | Δ1 bp | 14.5% | 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 |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_002947_CJ‑RC | 4809806 | 4810003 | 198 | 30 [29] | [29] 30 | 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_CJ‑RC | = 82119 | 71 (1.130) | 5 (0.080) +CACGC |
4/262 | NT | 12.6% | intergenic (+96/+32) | PP_0071/qor‑I | hypothetical protein/quinone oxidoreductase |
| ? | NC_002947_CJ‑RC | 1499507 = | 1 (0.020) | intergenic (+84/‑80) | trpS/zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein | |||||
| * | ? | NC_002947_CJ‑RC | = 499202 | 12 (0.190) | 6 (0.100) | 4/254 | NT | 37.3% | intergenic (+46/‑250) | uhpA/PP_0411 | two‑component system response regulator UhpA/polyamine ABC transporter ATP‑binding protein |
| ? | NC_002947_CJ‑RC | = 499271 | 9 (0.150) | intergenic (+115/‑181) | uhpA/PP_0411 | two‑component system response regulator UhpA/polyamine ABC transporter ATP‑binding protein | |||||
| * | ? | NC_002947_CJ‑RC | = 652782 | 48 (0.760) | 9 (0.170) | 7/232 | NT | 30.6% | 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 | 677759 = | 69 (1.090) | 3 (0.050) | 3/256 | NT | 5.0% | coding (1259/1374 nt) | PP_0581 | 3‑oxoacyl‑ACP reductase |
| ? | NC_002947_CJ‑RC | 677901 = | 48 (0.810) | coding (1117/1374 nt) | PP_0581 | 3‑oxoacyl‑ACP reductase | |||||
| * | ? | NC_002947_CJ‑RC | 1177169 = | 52 (0.820) | 3 (0.050) | 3/256 | NT | 5.5% | coding (52/1578 nt) | guaA | glutamine‑hydrolyzing GMP synthase |
| ? | NC_002947_CJ‑RC | 1177219 = | 55 (0.930) | coding (102/1578 nt) | guaA | glutamine‑hydrolyzing GMP synthase | |||||
| * | ? | NC_002947_CJ‑RC | = 1297017 | NA (NA) | 3 (0.050) | 3/254 | NT | NA | coding (205/1329 nt) | PP_1133 | transposase |
| ? | NC_002947_CJ‑RC | = 1297028 | NA (NA) | coding (216/1329 nt) | PP_1133 | transposase | |||||
| * | ? | NC_002947_CJ‑RC | = 1419549 | 10 (0.160) | 9 (0.150) | 7/266 | NT | 34.1% | intergenic (‑38/+98) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein |
| ? | NC_002947_CJ‑RC | = 1419636 | 25 (0.410) | intergenic (‑125/+11) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_002947_CJ‑RC | 1451999 = | 57 (0.900) | 3 (0.050) | 3/258 | NT | 5.6% | coding (161/1542 nt) | PP_1271 | putative Multidrug efflux MFS transporter |
| ? | NC_002947_CJ‑RC | 1452086 = | 48 (0.800) | coding (248/1542 nt) | PP_1271 | putative Multidrug efflux MFS transporter | |||||
| * | ? | NC_002947_CJ‑RC | = 2472115 | 30 (0.480) | 6 (0.100) | 6/258 | NT | 15.1% | intergenic (+19/+130) | PP_2166/PP_2167 | anti‑anti‑sigma factor/PhoD‑like phosphatase |
| ? | NC_002947_CJ‑RC | 2472313 = | 39 (0.650) | coding (1783/1851 nt) | PP_2167 | PhoD‑like phosphatase | |||||
| * | ? | NC_002947_CJ‑RC | 2751160 = | 54 (0.860) | 3 (0.050) | 3/258 | NT | 5.5% | intergenic (‑225/‑14) | aroQ‑II/czcC‑II | type II 3‑dehydroquinate dehydratase/cobalt‑zinc‑cadmium resistance protein |
| ? | NC_002947_CJ‑RC | 2751195 = | 51 (0.850) | coding (22/1278 nt) | czcC‑II | cobalt‑zinc‑cadmium resistance protein | |||||
| * | ? | NC_002947_CJ‑RC | = 4586136 | 5 (0.080) | 9 (0.160) | 6/250 | NT | 43.3% | intergenic (+112/+103) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947_CJ‑RC | = 4586216 | 19 (0.330) | intergenic (+192/+23) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||
| * | ? | NC_002947_CJ‑RC | = 4725352 | 46 (0.730) | 3 (0.050) | 3/260 | NT | 5.6% | coding (588/750 nt) | PP_4183 | membrane protein |
| ? | NC_002947_CJ‑RC | = 4725399 | 57 (0.950) | coding (541/750 nt) | PP_4183 | membrane protein | |||||
| * | ? | NC_002947_CJ‑RC | 4809877 = | 0 (0.000) | 8 (0.170) | 4/202 | NT | 30.8% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947_CJ‑RC | = 5991750 | 36 (0.770) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947_CJ‑RC | = 5599228 | 51 (0.810) | 3 (0.050) | 3/256 | NT | 5.5% | intergenic (‑79/‑87) | PP_mr58/PP_4923 | TPP regulatory region/outer membrane efflux protein |
| ? | NC_002947_CJ‑RC | = 5599261 | 56 (0.940) | intergenic (‑112/‑54) | PP_mr58/PP_4923 | TPP regulatory region/outer membrane efflux protein | |||||
| * | ? | NC_002947_CJ‑RC | = 5916999 | 14 (0.220) | 4 (0.080) | 4/216 | NT | 24.2% | intergenic (+76/+77) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase |
| ? | NC_002947_CJ‑RC | = 5917039 | 14 (0.280) | intergenic (+116/+37) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase | |||||
| * | ? | NC_002947_CJ‑RC | = 5991572 | 44 (0.700) | 4 (0.070) | 4/256 | NT | 9.2% | intergenic (+51/‑495) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| ? | NC_002947_CJ‑RC | 5991794 = | 38 (0.640) | intergenic (+273/‑273) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947_CJ‑RC | = 5991574 | 43 (0.680) | 3 (0.050) | 3/258 | NT | 6.8% | intergenic (+53/‑493) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| ? | NC_002947_CJ‑RC | 5991766 = | 42 (0.700) | intergenic (+245/‑301) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947_CJ‑RC | = 5991586 | 44 (0.700) | 5 (0.080) | 5/256 | NT | 10.7% | intergenic (+65/‑481) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| ? | NC_002947_CJ‑RC | 5991778 = | 42 (0.710) | intergenic (+257/‑289) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947_CJ‑RC | = 6063270 | 33 (0.520) | 3 (0.050) | 3/252 | NT | 8.3% | intergenic (+91/+90) | PP_5311/PP_5312 | signal transduction protein/hypothetical protein |
| ? | NC_002947_CJ‑RC | = 6063307 | 36 (0.620) | intergenic (+128/+53) | PP_5311/PP_5312 | signal transduction protein/hypothetical protein | |||||