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 | 11,183 | G→A | 14.8% | L27L (TTG→TTA) | dnaN → | DNA polymerase III subunit beta |
| RA | 64,436 | G→T | 25.0% | R94S (CGC→AGC) | PP_0055 ← | transcriptional regulator |
| RA | 83,215 | G→T | 15.9% | intergenic (‑87/‑46) | qor‑I ← / → hemF | quinone oxidoreductase/coproporphyrinogen‑III oxidase |
| RA | 97,931 | G→T | 25.0% | V30V (GTC→GTA) | PP_0091 ← | putative lipoprotein |
| RA | 129,229 | C→A | 18.1% | P569P (CCC→CCA) | polA → | DNA polymerase I |
| RA | 129,307 | C→A | 19.9% | T595T (ACC→ACA) | polA → | DNA polymerase I |
| RA | 188,837 | C→T | 100% | R316C (CGC→TGC) | PP_0165 → | GGDEF domain‑containing protein |
| RA | 195,559 | C→A | 35.2% | T355T (ACC→ACA) | PP_0168 → | putative surface adhesion protein |
| RA | 195,634 | C→T | 47.8% | T380T (ACC→ACT) | PP_0168 → | putative surface adhesion protein |
| RA | 196,306 | T→C | 33.3% | N604N (AAT→AAC) | PP_0168 → | putative surface adhesion protein |
| RA | 196,327 | A→C | 36.1% | T611T (ACA→ACC) | PP_0168 → | putative surface adhesion protein |
| RA | 196,351 | C→G | 34.7% | 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 | 197,089 | T→C | 17.1% | N865N (AAT→AAC) | PP_0168 → | putative surface adhesion protein |
| RA | 197,590 | T→C | 17.8% | D1032D (GAT→GAC) | PP_0168 → | putative surface adhesion protein |
| RA | 206,575 | G→T | 14.8% | P4027P (CCG→CCT) | PP_0168 → | putative surface adhesion protein |
| RA | 212,011 | C→A | 23.5% | V5839V (GTC→GTA) | PP_0168 → | putative surface adhesion protein |
| RA | 212,038 | C→A | 26.7% | V5848V (GTC→GTA) | PP_0168 → | putative surface adhesion protein |
| RA | 218,280 | G→T | 21.0% | W7929L (TGG→TTG) | PP_0168 → | putative surface adhesion protein |
| RA | 233,545 | C→T | 100% | G548G (GGC→GGT) | PP_0180 → | cytochrome c family protein |
| RA | 289,318 | G→T | 16.6% | D246Y (GAC→TAC) | oprE → | outer‑membrane porin E |
| RA | 335,632 | G→A | 17.4% | T51I (ACC→ATC) | PP_5437 ← | hypothetical protein |
| RA | 382,420 | G→A | 21.0% | A43V (GCC→GTC) | PP_0317 ← | methyl‑accepting chemotaxis transducer |
| RA | 455,991 | G→T | 20.0% | R223R (CGG→AGG) | PP_0375 ← | prolyl oligopeptidase family protein |
| RA | 459,510 | C→A | 26.6% | Q116H (CAG→CAT) | pqqB ← | coenzyme PQQ synthesis protein B |
| RA | 476,133 | A→T | 100% | Q141L (CAG→CTG) | tsaD → | tRNA N6‑adenosine(37)‑threonylcarbamoyltransferase complex transferase subunit TsaD |
| RA | 498,893 | G→T | 30.7% | G122W (GGG→TGG) | uhpA → | two‑component system response regulator UhpA |
| RA | 501,457 | C→T | 13.8% | Q280* (CAG→TAG) | PP_0412 → | polyamine ABC transportersubstrate‑binding protein |
| RA | 527,898 | Δ1 bp | 15.9% | noncoding (1133/2902 nt) | PP_23SC → | 23S ribosomal RNA |
| RA | 527,917 | A→G | 13.4% | noncoding (1152/2902 nt) | PP_23SC → | 23S ribosomal RNA |
| RA | 527,921 | G→C | 13.4% | noncoding (1156/2902 nt) | PP_23SC → | 23S ribosomal RNA |
| RA | 527,922 | T→A | 12.6% | noncoding (1157/2902 nt) | PP_23SC → | 23S ribosomal RNA |
| RA | 527,923 | A→G | 12.7% | noncoding (1158/2902 nt) | PP_23SC → | 23S ribosomal RNA |
| RA | 527,924 | T→C | 12.7% | noncoding (1159/2902 nt) | PP_23SC → | 23S ribosomal RNA |
| RA | 527,925 | C→G | 12.7% | noncoding (1160/2902 nt) | PP_23SC → | 23S ribosomal RNA |
| RA | 527,926:1 | +C | 12.7% | noncoding (1161/2902 nt) | PP_23SC → | 23S ribosomal RNA |
| RA | 527,927 | T→G | 12.7% | noncoding (1162/2902 nt) | PP_23SC → | 23S ribosomal RNA |
| RA | 527,931:1 | +T | 12.5% | noncoding (1166/2902 nt) | PP_23SC → | 23S ribosomal RNA |
| RA | 527,931:2 | +G | 12.5% | noncoding (1166/2902 nt) | PP_23SC → | 23S ribosomal RNA |
| RA | 527,934 | A→T | 13.0% | noncoding (1169/2902 nt) | PP_23SC → | 23S ribosomal RNA |
| RA | 527,937 | A→T | 14.0% | noncoding (1172/2902 nt) | PP_23SC → | 23S ribosomal RNA |
| RA | 527,940 | Δ1 bp | 13.4% | noncoding (1175/2902 nt) | PP_23SC → | 23S ribosomal RNA |
| RA | 527,946 | A→G | 14.4% | noncoding (1181/2902 nt) | PP_23SC → | 23S ribosomal RNA |
| RA | 539,661 | A→G | 100% | D679G (GAC→GGC) | rpoB → | DNA‑directed RNA polymerase subunit beta |
| RA | 585,643 | C→A | 21.0% | M377I (ATG→ATT) | PP_0496 ← | sodium/alanine symporter |
| RA | 699,725 | A→G | 19.0% | intergenic (+115/‑129) | PP_t06 → / → PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| RA | 722,225 | G→T | 20.0% | P176P (CCC→CCA) | PP_0616 ← | ABC transporter ATP‑binding protein |
| RA | 858,206 | A→G | 30.8% | A207A (GCT→GCC) | phr ← | deoxyribodipyrimidine photolyase |
| RA | 864,723 | C→A | 15.3% | T155T (ACG→ACT) | uraA ← | uracil permease |
| RA | 929,100 | C→G | 15.2% | D5509H (GAC→CAC) | PP_0806 ← | surface adhesion protein |
| RA | 955,600 | G→T | 18.2% | R80L (CGC→CTC) | alaC → | aminotransferase |
| RA | 958,524 | C→A | 28.5% | intergenic (+168/‑25) | ykgJ → / → PP_0820 | ferredoxin/acetyltransferase |
| RA | 1,011,323:1 | +T | 100% | intergenic (‑258/+192) | PP_0871 ← / ← SBRG_Ecoli_galM | glycine betaine/carnitine/choline ABC transporter permease/SBRG_Ecoli_galM |
| RA | 1,050,159 | G→T | 18.2% | G72W (GGG→TGG) | PP_0905 → | hypothetical protein |
| RA | 1,080,607 | A→G | 14.8% | H124R (CAC→CGC) | mreB → | cell wall structural actin‑like protein MreB |
| RA | 1,111,654 | C→T | 14.7% | Q394* (CAG→TAG) | hisD → | histidinol dehydrogenase |
| RA | 1,132,120 | C→A | 16.6% | G796C (GGC→TGC) | gcvP‑I ← | glycine dehydrogenase |
| RA | 1,148,110 | C→T | 6.3% | S97S (AGC→AGT) | arcD‑II → | arginine/ornithine antiporter |
| RA | 1,180,137 | C→A | 18.7% | P86H (CCC→CAC) | PP_1030 → | hypothetical protein |
| RA | 1,241,784 | T→C | 12.1% | F113F (TTT→TTC) | ybaK → | Cys‑tRNAPro deacylase |
| RA | 1,279,499 | G→T | 21.1% | intergenic (‑459/+23) | PP_1115 ← / ← PP_5462 | lipoprotein/hypothetical protein |
| RA | 1,294,334 | A→G | 14.9% | S218G (AGC→GGC) | PP_1126 → | hydrolase |
| RA | 1,315,744 | G→T | 24.9% | I248I (ATC→ATA) | PP_1144 ← | membrane protein |
| RA | 1,332,076 | C→T | 54.1% | intergenic (+97/‑196) | PP_16SE → / → PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| RA | 1,438,946 | C→A | 26.6% | G132W (GGG→TGG) | PP_1255 ← | cis‑4‑hydroxy‑D‑proline oxidase |
| JC | 1,515,769 | Δ33 bp | 100% | pseudogene (757‑789/1851 nt) | PP_1325 ← | putative lipoprotein |
| RA | 1,560,480 | T→C | 100% | K109E (AAA→GAA) | PP_1366 ← | transcriptional regulator MvaT |
| RA | 1,587,557 | G→T | 20.6% | intergenic (‑12/‑246) | ttgA ← / → ttgR | efflux pump periplasmic linker TtgA/HTH‑type transcriptional regulator TtgR |
| RA | 1,856,513 | A→G | 100% | D203G (GAT→GGT) | relA → | ATP:GTP 3'‑pyrophosphotransferase |
| RA | 1,925,271 | C→A | 19.0% | V59V (GTG→GTT) | prc ← | tail‑specific protease Prc |
| RA | 1,930,569 | C→A | 21.0% | D42Y (GAC→TAC) | PP_1725 ← | hypothetical protein |
| RA | 1,973,703 | G→T | 15.9% | A36A (GCC→GCA) | gph ← | phosphoglycolate phosphatase |
| RA | 1,979,132 | C→T | 20.0% | I50I (ATC→ATT) | serC → | 3‑phosphoserine/phosphohydroxythreonine aminotransferase |
| RA | 2,018,313 | G→T | 23.5% | P234H (CCC→CAC) | PP_1793 ← | group 2 family glycosyl transferase |
| RA | 2,092,443 | G→A | 34.3% | intergenic (+264/+654) | PP_1865 → / ← aroH | transposase/3‑deoxy‑7‑phosphoheptulonate synthase |
| RA | 2,092,445 | T→G | 34.4% | intergenic (+266/+652) | PP_1865 → / ← aroH | transposase/3‑deoxy‑7‑phosphoheptulonate synthase |
| RA | 2,092,447 | A→C | 33.2% | intergenic (+268/+650) | PP_1865 → / ← aroH | transposase/3‑deoxy‑7‑phosphoheptulonate synthase |
| RA | 2,164,610 | G→T | 14.7% | M200I (ATG→ATT) | fabF → | beta‑ketoacyl‑ACP synthase II |
| RA | 2,168,855 | G→T | 13.5% | G242C (GGT→TGT) | PP_5482 → | hypothetical protein |
| RA | 2,244,269 | G→T | 16.0% | Q154K (CAG→AAG) | PP_1976 ← | HlyD family secretion protein |
| RA | 2,280,496 | C→A | 18.4% | intergenic (‑15/+174) | PP_2005 ← / ← PP_2006 | hypothetical protein/membrane protein |
| RA | 2,393,254 | G→A | 14.8% | *341* (TGA→TAA) | pyrD → | dihydroorotate dehydrogenase |
| RA | 2,393,903 | T→C | 16.0% | intergenic (‑144/‑229) | PP_mr31 ← / → rlmKL | rmf regulatory region/23S rRNA (guanine(2445)‑N(2))/(guanine(2069)‑N(7))‑ methyltransferase |
| RA | 2,415,134 | C→A | 31.7% | G436C (GGC→TGC) | acnA‑I ← | aconitate hydratase |
| RA | 2,434,799 | G→T | 19.0% | Q247H (CAG→CAT) | PP_2129 → | hypothetical protein |
| RA | 2,434,815 | G→T | 21.0% | G253C (GGC→TGC) | PP_2129 → | hypothetical protein |
| RA | 2,434,837 | G→T | 23.5% | G260V (GGG→GTG) | PP_2129 → | hypothetical protein |
| RA | 2,552,855 | C→A | 21.0% | A113A (GCG→GCT) | rhtA ← | threonine/homoserine exporter |
| RA | 2,553,104 | G→T | 40.1% | S30S (TCC→TCA) | rhtA ← | threonine/homoserine exporter |
| RA | 2,601,505 | G→T | 26.7% | G411V (GGG→GTG) | PP_2273 → | DNA polymerase I |
| RA | 2,601,536 | G→T | 24.9% | M421I (ATG→ATT) | PP_2273 → | DNA polymerase I |
| RA | 2,616,866 | G→T | 22.2% | G271G (GGG→GGT) | PP_2287 → | internal core protein |
| RA | 2,671,564 | G→T | 17.4% | R812L (CGG→CTG) | acnA‑II → | aconitate hydratase |
| RA | 2,702,220 | C→A | 16.1% | G357W (GGG→TGG) | PP_2364 ← | hypothetical protein |
| RA | 2,754,185 | G→T | 22.2% | W68L (TGG→TTG) | PP_2405 → | hypothetical protein |
| RA | 2,777,922 | G→T | 14.2% | intergenic (‑115/‑67) | PP_2425 ← / → calA | AraC family transcriptional regulator/coniferyl alcohol dehydrogenase |
| RA | 2,781,497 | C→T | 6.7% | S284S (AGC→AGT) | sotB → | sugar efflux transporter |
| RA | 2,788,717 | C→A | 25.0% | R60S (CGC→AGC) | PP_2437 → | acyl‑CoA dehydrogenase |
| RA | 2,798,639 | C→A | 16.6% | L237M (CTG→ATG) | PP_2445 → | membrane protein |
| RA | 2,863,689 | C→A | 18.2% | intergenic (‑53/‑73) | PP_2510 ← / → PP_2511 | hypothetical protein/hypothetical protein |
| RA | 2,914,939 | C→T | 16.0% | G164D (GGC→GAC) | aprDA ← | alkaline protease secretion ABC transporter ATP‑binding protein |
| RA | 2,933,860 | C→A | 21.0% | A712D (GCC→GAC) | PP_2565 → | UvrD/REP family helicase |
| RA | 3,010,729 | G→T | 17.3% | R773L (CGG→CTG) | PP_2627 → | membrane protein |
| RA | 3,017,306 | G→T | 15.3% | E459* (GAG→TAG) | bcsG → | endoglucanase |
| RA | 3,024,810 | C→T | 16.0% | A119V (GCG→GTG) | PP_2638 → | cellulose synthase operon protein C |
| RA | 3,030,064 | C→A | 14.8% | E522* (GAG→TAG) | PP_2641 ← | iron‑sulfur cluster‑binding protein |
| RA | 3,143,420 | G→T | 19.9% | Q189H (CAG→CAT) | PP_2754 → | OprD family outer membrane porin |
| RA | 3,189,092 | G→T | 19.9% | L196F (TTG→TTT) | PP_2794 → | short‑chain dehydrogenase/reductase family oxidoreductase |
| RA | 3,238,677 | C→A | 25.0% | L291L (CTC→CTA) | GbpR → | galactose‑binding protein regulator |
| RA | 3,252,705 | C→A | 17.4% | P271Q (CCG→CAG) | ureD → | urease accessory protein |
| RA | 3,282,974 | C→T | 17.3% | G47S (GGC→AGC) | ampC ← | beta‑lactamase |
| RA | 3,287,434 | G→T | 16.6% | L158M (CTG→ATG) | PP_2884 ← | XRE family transcriptional regulator |
| RA | 3,292,711 | C→A | 17.4% | D132Y (GAC→TAC) | xthA ← | exodeoxyribonuclease III/apurinic/apyrimidinic endodeoxyribonuclease VI |
| RA | 3,363,855 | C→T | 28.6% | G274S (GGC→AGC) | PP_2955 ← | CorA family magnesium/cobalt transporter |
| RA | 3,376,667 | C→A | 23.5% | G34W (GGG→TGG) | PP_2968 ← | high‑affinity nickel/cobalt transporter |
| RA | 3,392,859 | C→A | 19.0% | V216V (GTC→GTA) | PP_2989 → | short‑chain dehydrogenase/reductase family oxidoreductase |
| RA | 3,408,679 | C→A | 25.5% | P35P (CCC→CCA) | PP_3014 → | hypothetical protein |
| RA | 3,431,130 | C→T | 26.6% | D29D (GAC→GAT) | PP_3042 → | terminase large subunit |
| RA | 3,468,369 | G→A | 14.8% | G327G (GGC→GGT) | PP_3078 ← | ABC transporter substrate‑binding protein |
| RA | 3,506,031 | G→T | 14.8% | intergenic (‑258/‑228) | PP_5566 ← / → PP_5567 | hypothetical protein/hypothetical protein |
| RA | 3,603,520 | G→T | 15.4% | P393T (CCG→ACG) | PP_3175 ← | ferredoxin reductase dioxygenase subunit |
| RA | 3,644,417 | G→T | 18.1% | A146A (GCG→GCT) | PP_3206 → | hypothetical protein |
| RA | 3,644,438 | G→T | 15.3% | E153D (GAG→GAT) | PP_3206 → | hypothetical protein |
| RA | 3,718,098 | G→T | 16.6% | intergenic (‑111/+88) | paaA ← / ← paaK | ring 1,2‑phenylacetyl‑CoA epoxidase subunit alpha/phenylacetate‑CoA ligase |
| RA | 3,864,440 | G→T | 24.9% | R94L (CGC→CTC) | cobM → | precorrin‑4 C(11)‑methyltransferase |
| RA | 3,936,492 | G→T | 26.7% | A93A (GCC→GCA) | PP_5604 ← | subtilisin‑like serine protease |
| RA | 3,953,465 | G→T | 19.0% | P56P (CCC→CCA) | PP_3484 ← | two‑component system response regulator |
| RA | 3,997,970 | T→G | 26.1% | D31A (GAT→GCT) | PP_3518 ← | hypothetical protein |
| RA | 4,018,201 | G→A | 100% | intergenic (+144/‑36) | mvaB → / → PP_mr44 | hydroxymethylglutaryl‑CoA lyase/CrcZ ncRNA |
| RA | 4,125,189 | C→A | 18.1% | P204P (CCC→CCA) | adhB → | alcohol dehydrogenase cytochrome c subunit |
| RA | 4,256,816 | G→T | 13.9% | A70A (GCC→GCA) | PP_3726 ← | enoyl‑CoA hydratase/isomerase family protein |
| RA | 4,334,780 | C→T | 7.8% | G44G (GGC→GGT) | PP_3801 → | cation ABC transporter substrate‑binding protein |
| RA | 4,353,698 | A→G | 34.1% | intergenic (‑70/+404) | PP_3820 ← / ← galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| RA | 4,359,353 | C→A | 12.8% | T106T (ACC→ACA) | modA → | molybdate‑binding protein |
| RA | 4,368,545 | C→A | 16.0% | P213Q (CCG→CAG) | adhP → | alcohol dehydrogenase |
| RA | 4,425,941 | G→A | 16.7% | G233D (GGC→GAC) | PP_3912 → | DNA‑cytosine methyltransferase |
| RA | 4,465,033 | C→A | 22.8% | F355L (TTC→TTA) | trkH‑I → | potassium transporter |
| RA | 4,494,386 | G→T | 26.6% | P824Q (CCA→CAA) | PP_3982 ← | hypothetical protein |
| RA | 4,501,020 | G→T | 16.0% | E113* (GAA→TAA) | PP_3987 → | site‑specific recombinase |
| RA | 4,525,911 | C→A | 14.8% | G274C (GGT→TGT) | icd ← | NADP(+)‑specific isocitrate dehydrogenase |
| RA | 4,525,959 | C→A | 16.0% | E258* (GAA→TAA) | icd ← | NADP(+)‑specific isocitrate dehydrogenase |
| RA | 4,540,730 | C→A | 20.0% | intergenic (+264/‑551) | PP_4022 → / → PP_4024 | hypothetical protein/transposase |
| RA | 4,557,342 | C→A | 21.0% | G87V (GGG→GTG) | rutR ← | transcriptional regulator, TetR family |
| RA | 4,558,839 | G→T | 24.9% | P360P (CCC→CCA) | PP_4041 ← | glycoside hydrolase |
| RA | 4,630,210 | C→A | 44.4% | intergenic (+3808/+756) | PP_5654 → / ← PP_4091 | phosphotriesterase/transposase |
| RA | 4,694,596 | G→T | 20.0% | G161C (GGC→TGC) | yejF → | microcin C ABC transporter ATP‑binding protein |
| RA | 4,694,662 | G→T | 17.4% | E183* (GAG→TAG) | yejF → | microcin C ABC transporter ATP‑binding protein |
| RA | 4,727,836 | G→T | 23.5% | T241T (ACC→ACA) | htpG ← | chaperone protein HtpG |
| RA | 4,727,844 | G→T | 30.7% | L239M (CTG→ATG) | htpG ← | chaperone protein HtpG |
| RA | 4,746,222:1 | +C | 100% | intergenic (+464/+288) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,746,224 | A→G | 100% | intergenic (+466/+286) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,746,226 | C→T | 100% | intergenic (+468/+284) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,746,229 | C→T | 100% | intergenic (+471/+281) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,746,232 | C→G | 100% | intergenic (+474/+278) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,746,234 | 2 bp→CT | 100% | intergenic (+476/+275) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,746,248 | C→T | 100% | intergenic (+490/+262) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,746,250 | A→C | 100% | intergenic (+492/+260) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,746,253 | 2 bp→GC | 100% | intergenic (+495/+256) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,755,122 | G→T | 22.2% | P109T (CCG→ACG) | mqsA ← | type II toxin‑antitoxin MqsRA system antitoxin/DNA‑binding transcriptional repressor |
| RA | 4,868,382 | C→A | 19.9% | E829* (GAA→TAA) | smc ← | chromosome partition protein Smc |
| RA | 4,905,584 | C→A | 17.4% | P18P (CCC→CCA) | PP_4309 → | NCS1 family transporter |
| RA | 4,913,204 | G→A | 10.8% | intergenic (‑186/‑96) | PP_4317 ← / → PP_4318 | hypothetical protein/transposase |
| RA | 4,917,234 | G→T | 16.6% | A158A (GCC→GCA) | ccmG ← | holocytochrome c synthetase subunit |
| RA | 4,947,598 | C→A | 23.5% | A13A (GCC→GCA) | PP_4350 → | class V NifS/IscS family aminotransferase |
| RA | 4,964,170 | C→A | 15.3% | R432L (CGG→CTG) | fliF ← | flagellar M‑ring protein |
| RA | 4,964,217 | C→A | 23.5% | V416V (GTG→GTT) | fliF ← | flagellar M‑ring protein |
| RA | 4,975,345 | G→T | 20.0% | intergenic (‑109/+285) | fliC ← / ← PP_4379 | flagellin/3‑oxoacyl‑ACP synthase |
| RA | 4,977,639 | G→T | 20.4% | A301A (GCC→GCA) | flgL ← | flagellar hook‑associated protein FlgL |
| RA | 5,052,709 | G→T | 17.3% | S73S (TCC→TCA) | PP_5685 ← | hypothetical protein |
| RA | 5,088,531 | G→T | 19.0% | A244A (GCC→GCA) | alaS ← | alanine‑‑tRNA ligase |
| RA | 5,144,362 | C→A | 22.2% | L153M (CTG→ATG) | PP_4524 → | sodium‑solute symporter |
| RA | 5,192,636 | C→A | 21.1% | A48A (GCC→GCA) | PP_4567 → | hypothetical protein |
| RA | 5,207,955 | G→T | 18.1% | W422L (TGG→TTG) | PP_4583 → | putative Peptidase |
| RA | 5,351,540 | G→A | 16.9% | intergenic (+6/‑36) | acsA‑II → / → PP_4703 | acetyl‑CoA synthetase/hypothetical protein |
| RA | 5,411,990 | C→T | 25.0% | A142T (GCC→ACC) | PP_4751 ← | amino acid ABC transporter ATP‑binding protein |
| RA | 5,508,534 | T→C | 11.1% | F163L (TTC→CTC) | oprC → | copper receptor OprC |
| RA | 5,514,905 | T→G | 52.8% | L36R (CTC→CGC) | urtB → | urea ABC transporter permease |
| RA | 5,647,315 | C→A | 20.8% | L162L (CTC→CTA) | dbpA → | 23S rRNA specific ATP‑dependent RNA helicase |
| RA | 5,655,608 | C→A | 30.7% | Q195H (CAG→CAT) | PP_4959 ← | diguanylate cyclase |
| RA | 5,747,621 | G→T | 21.0% | T184T (ACC→ACA) | fbp ← | class 1 fructose‑1,6‑bisphosphatase |
| RA | 5,759,773 | G→T | 26.6% | G322C (GGC→TGC) | glnL → | two‑component system sensor histidine kinase/phosphatase GlnL/GlnG |
| RA | 5,785,269 | G→T | 20.0% | D190Y (GAC→TAC) | cvrA → | K(+)/H(+) antiporter NhaP |
| RA | 5,855,276 | Δ1 bp | 13.8% | coding (976/1842 nt) | ilvD → | dihydroxy‑acid dehydratase |
| RA | 5,855,277 | Δ1 bp | 13.8% | coding (977/1842 nt) | ilvD → | dihydroxy‑acid dehydratase |
| RA | 5,920,646 | G→A | 19.0% | intergenic (‑82/+43) | argA ← / ← argE | amino acid N‑acetyltransferase/acetylornithine deacetylase |
| RA | 5,924,542 | T→C | 12.5% | A41A (GCT→GCC) | PP_5190 → | type II secretion system protein |
| RA | 5,990,934 | G→T | 21.7% | D66Y (GAC→TAC) | PP_5245 → | AraC family transcriptional regulator |
| RA | 5,993,814 | G→A | 53.5% | intergenic (+103/‑443) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 6,078,315 | G→T | 19.9% | L316M (CTG→ATG) | PP_5327 ← | phosphate ABC transporter permease |
| RA | 6,081,237 | C→A | 22.2% | K110N (AAG→AAT) | PP_5328 ← | phosphate ABC transporter permease |
| RA | 6,171,321 | C→A | 14.8% | intergenic (‑75/‑605) | PP_5406 ← / → PP_5407 | transposase/TnsD‑like transposition protein |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_002947 | 90374 | 90382 | 9 | 2 [1] | [1] 2 | PP_0079/PP_0080 | transcriptional regulator/hypothetical protein |
| * | * | ÷ | NC_002947 | 91751 | 91839 | 89 | 2 [1] | [1] 2 | trpA | tryptophan synthase subunit alpha |
| * | * | ÷ | NC_002947 | 123890 | 123952 | 63 | 2 [0] | [1] 3 | znuC | zinc ABC transporter ATP‑binding protein |
| * | * | ÷ | NC_002947 | 171390–172965 | 176282–172987 | 23–4893 | 2 [1] | [1] 2 | [PP_16SA]–[PP_5SA] | [PP_16SA],PP_23SA,[PP_5SA] |
| * | * | ÷ | NC_002947 | 176656–178395 | 181689–178417 | 23–5034 | 2 [1] | [1] 2 | PP_16SB–[PP_r01] | PP_16SB,PP_23SB,[PP_r01] |
| * | * | ÷ | NC_002947 | 284554 | 284599 | 46 | 2 [1] | [1] 2 | [betT‑II] | [betT‑II] |
| * | * | ÷ | NC_002947 | 353046 | 353088 | 43 | 2 [1] | [0] 2 | hisF/cbcV | imidazole glycerol phosphate synthase subunit HisF/choline/betaine/carnitine ABC transporter ATP binding protein |
| * | * | ÷ | NC_002947 | 681267 | 681309 | 43 | 3 [1] | [0] 2 | PP_0583/PP_0584 | AraC family transcriptional regulator/methyl‑accepting chemotaxis transducer |
| * | * | ÷ | NC_002947 | 796835 | 796860 | 26 | 2 [1] | [1] 3 | PP_0681/PP_0682 | hypothetical protein/inner membrane protein |
| * | * | ÷ | NC_002947 | 863894 | 863932 | 39 | 2 [1] | [1] 2 | [uraA] | [uraA] |
| * | * | ÷ | NC_002947 | 883863 | 883878 | 16 | 2 [1] | [1] 4 | PP_0766/PP_0767 | hypothetical protein/LuxR family transcriptional regulator |
| * | * | ÷ | NC_002947 | 1007467 | 1007687 | 221 | 4 [1] | [1] 2 | [PP_0867]–[yehX] | [PP_0867],[yehX] |
| * | * | ÷ | NC_002947 | 1030249 | 1030258 | 10 | 2 [0] | [1] 2 | opdP/dppA‑II | glycine‑glutamate dipeptide porin/dipeptide ABC transporter substrate‑binding protein |
| * | * | ÷ | NC_002947 | 1129452 | 1129517 | 66 | 2 [1] | [0] 2 | gcvT‑I | aminomethyltransferase |
| * | * | ÷ | NC_002947 | 1131565 | 1131605 | 41 | 2 [1] | [1] 2 | tdcG‑II/gcvP‑I | L‑serine dehydratase/glycine dehydrogenase |
| * | * | ÷ | NC_002947 | 1316687 | 1316703 | 17 | 2 [1] | [1] 2 | PP_1144/rapA | membrane protein/RNA polymerase‑associated protein RapA |
| * | * | ÷ | NC_002947 | 1363673 | 1363767 | 95 | 2 [1] | [1] 3 | PP_1183 | siderophore biosynthesis protein |
| * | * | ÷ | NC_002947 | 1414064 | 1414082 | 19 | 2 [0] | [1] 2 | PP_1230/nadA | hypothetical protein/quinolinate synthase iron‑sulfur cluster subunit |
| * | * | ÷ | NC_002947 | 1448081 | 1448137 | 57 | 2 [1] | [0] 3 | ghrB/PP_1262 | 2‑ketoaldonate reductase/hydroxypyruvate/glyoxylate reductase/LysR family transcriptional regulator |
| * | * | ÷ | NC_002947 | 1492015 | 1492027 | 13 | 2 [1] | [0] 2 | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS |
| * | * | ÷ | NC_002947 | 1536738 | 1536795 | 58 | 2 [1] | [1] 2 | PP_1344 | hypothetical protein |
| * | * | ÷ | NC_002947 | 1597586 | 1597613 | 28 | 2 [1] | [0] 2 | PP_1397 | hypothetical protein |
| * | * | ÷ | NC_002947 | 1708206 | 1708267 | 62 | 2 [1] | [1] 2 | lysS/PP_1497 | lysine‑‑tRNA ligase/TetR family transcriptional regulator |
| * | * | ÷ | NC_002947 | 1709612 | 1709649 | 38 | 3 [1] | [1] 2 | [PP_1499] | [PP_1499] |
| * | * | ÷ | NC_002947 | 1845039 | 1845093 | 55 | 3 [1] | [1] 2 | [PP_1646] | [PP_1646] |
| * | * | ÷ | NC_002947 | 1935360 | 1935435 | 76 | 2 [1] | [1] 2 | [apeB] | [apeB] |
| * | * | ÷ | NC_002947 | 2052913 | 2052968 | 56 | 3 [0] | [1] 2 | PP_1820 | benzoate transport protein |
| * | * | ÷ | NC_002947 | 2068171 | 2068220 | 50 | 2 [1] | [0] 4 | PP_1838/PP_1839 | membrane protein/hypothetical protein |
| * | * | ÷ | NC_002947 | 2104928 | 2104996 | 69 | 2 [1] | [1] 3 | PP_1875/PP_1876 | two‑component system sensor histidine kinase/response regulator/AAA family ATP/GTP‑binding protein |
| * | * | ÷ | NC_002947 | 2300823 | 2300845 | 23 | 2 [1] | [1] 2 | PP_5496/PP_2023 | hypothetical protein/glutathione S‑transferase family protein |
| * | * | ÷ | NC_002947 | 2405510 | 2405556 | 47 | 4 [0] | [1] 2 | [dgt] | [dgt] |
| * | * | ÷ | NC_002947 | 2425084 | 2425156 | 73 | 2 [1] | [1] 2 | ctpH | methyl‑accepting chemotaxis protein CtpH |
| * | * | ÷ | NC_002947 | 2461839 | 2461880 | 42 | 2 [1] | [1] 2 | gapB/PP_2150 | glyceraldehyde‑3‑phosphate dehydrogenase/thiamine biosynthesis lipoprotein |
| * | * | ÷ | NC_002947 | 2479142 | 2479145 | 4 | 4 [1] | [0] 2 | PP_2167/tal | PhoD‑like phosphatase/transaldolase |
| * | * | ÷ | NC_002947 | 3058197 | 3058235 | 39 | 2 [1] | [1] 2 | PP_2664/agmR | two‑component system sensor histidine kinase/response regulator/glycerol metabolism activator |
| * | * | ÷ | NC_002947 | 3292251 | 3292277 | 27 | 2 [1] | [1] 5 | [PP_2889] | [PP_2889] |
| * | * | ÷ | NC_002947 | 3781354 | 3781409 | 56 | 2 [1] | [1] 2 | PP_3338/PP_3339 | cytochrome bd‑type quinol oxidase/hypothetical protein |
| * | * | ÷ | NC_002947 | 3850674 | 3850744 | 71 | 2 [1] | [1] 2 | [PP_3395] | [PP_3395] |
| * | * | ÷ | NC_002947 | 3956084 | 3956112 | 29 | 5 [1] | [1] 2 | PP_3486/PP_3487 | cytochrome c/hypothetical protein |
| * | * | ÷ | NC_002947 | 4175156 | 4175189 | 34 | 3 [1] | [1] 2 | katG/PP_3669 | catalase‑peroxidase/LysR family transcriptional regulator |
| * | * | ÷ | NC_002947 | 4358176 | 4358191 | 16 | 3 [0] | [0] 4 | yrpB | 2‑nitropropane dioxygenase |
| * | * | ÷ | NC_002947 | 4535016 | 4535026 | 11 | 2 [0] | [1] 2 | PP_4018/topB | acetyltransferase/DNA topoisomerase III |
| * | * | ÷ | NC_002947 | 4556984 | 4557012 | 29 | 2 [1] | [0] 2 | pydA/rutR | NADP‑dependent dihydropyrimidine dehydrogenase subunit PreA/transcriptional regulator, TetR family |
| * | * | ÷ | NC_002947 | 4745818 | 4745851 | 34 | 2 [1] | [1] 2 | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | * | ÷ | NC_002947 | 4801588 | 4801632 | 45 | 2 [1] | [1] 2 | pvdH/PP_4224 | diaminobutyrate‑2‑oxoglutarate transaminase/sensor histidine kinase |
| * | * | ÷ | NC_002947 | 4813174 | 4813202 | 29 | 46 [0] | [0] 18 | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | * | ÷ | NC_002947 | 4894558 | 4894619 | 62 | 2 [1] | [1] 3 | hyi/glxR | hydroxypyruvate isomerase/2‑hydroxy‑3‑oxopropionate reductase |
| * | * | ÷ | NC_002947 | 4955920 | 4955992 | 73 | 2 [1] | [1] 2 | fliL/fliK | flagellar protein FliL/flagellar hook‑length control protein FliK |
| * | * | ÷ | NC_002947 | 5178243 | 5178246 | 4 | 2 [0] | [1] 3 | fadD‑I/fadD‑II | long‑chain‑fatty acid‑‑CoA ligase/long‑chain‑fatty acid‑‑CoA ligase |
| * | * | ÷ | NC_002947 | 5197723 | 5197748 | 26 | 3 [1] | [0] 2 | PP_4572/PP_4573 | hypothetical protein/AAA family ATPase |
| * | * | ÷ | NC_002947 | 5204616 | 5204682 | 67 | 2 [1] | [1] 2 | [PP_4579] | [PP_4579] |
| * | * | ÷ | NC_002947 | 5261814 | 5261888 | 75 | 2 [1] | [1] 2 | [PP_5703] | [PP_5703] |
| * | * | ÷ | NC_002947 | 5490116 | 5490165 | 50 | 3 [1] | [1] 2 | purH/purD | bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase/phosphoribosylamine‑‑glycine ligase |
| * | * | ÷ | NC_002947 | 5511536 | 5511593 | 58 | 2 [0] | [1] 2 | [PP_4839] | [PP_4839] |
| * | * | ÷ | NC_002947 | 5542062 | 5542097 | 36 | 2 [1] | [1] 3 | nadE/PP_4870 | NH(3)‑dependent NAD(+) synthetase/azurin |
| * | * | ÷ | NC_002947 | 5562867 | 5562911 | 45 | 2 [1] | [1] 2 | PP_4888/purA | methyl‑accepting chemotaxis transducer/adenylosuccinate synthetase |
| * | * | ÷ | NC_002947 | 5686422 | 5686440 | 19 | 2 [0] | [1] 3 | PP_4986/PP_4987 | hemolysin III family channel protein/putative Chemotaxis protein |
| * | * | ÷ | NC_002947 | 5709514 | 5709574 | 61 | 3 [1] | [1] 2 | PP_5006/PP_5007 | TetR family transcriptional regulator/polyhydroxyalkanoate granule‑associated protein GA2 |
| * | * | ÷ | NC_002947 | 5729280 | 5729297 | 18 | 3 [1] | [0] 2 | PP_5024/opgH | amino acid ABC transporter substrate‑binding protein/glucans biosynthesis glucosyltransferase H |
| * | * | ÷ | NC_002947 | 5739081 | 5739107 | 27 | 3 [1] | [1] 2 | proY/hutH | proline (histidine) APC transporter/histidine ammonia‑lyase |
| * | * | ÷ | NC_002947 | 5821843 | 5821898 | 56 | 2 [1] | [1] 2 | PP_5092/pilT | NLP/P60 protein/twitching motility protein |
| * | * | ÷ | NC_002947 | 5908118 | 5908197 | 80 | 2 [1] | [1] 2 | PP_5175/PP_5176 | HlyD family secretion protein/hypothetical protein |
| * | * | ÷ | NC_002947 | 5989450 | 5989455 | 6 | 2 [0] | [1] 2 | PP_5242/ycaC‑II | GAF domain‑containing sensor histidine kinase/putative hydrolase |
| * | * | ÷ | NC_002947 | 6005942 | 6005962 | 21 | 2 [1] | [1] 3 | PP_5256/amaA | cyclic nucleotide‑binding protein/L‑pipecolate oxidase |
| * | * | ÷ | NC_002947 | 6011580 | 6011591 | 12 | 3 [0] | [0] 8 | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator |
| * | * | ÷ | NC_002947 | 6014146 | 6014157 | 12 | 6 [1] | [1] 3 | norM/PP_5263 | multidrug resistance protein NorM/GGDEF domain‑containing protein |
| * | * | ÷ | NC_002947 | 6032906 | 6032937 | 32 | 2 [0] | [1] 2 | PP_5277/kauB | MFS transporter/4‑guanidinobutyraldehyde dehydrogenase |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 652786 | 19 (0.980) | 5 (0.360) | 3/174 | NT | 42.5% | coding (1960/1962 nt) | ctpL | methyl‑accepting chemotaxis protein CtpL |
| ? | NC_002947 | 4813203 = | 0 (0.000) | intergenic (‑318/‑237) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | 744925 = | NA (NA) | 12 (0.630) | 8/242 | NT | 100% | intergenic (‑587/+44) | PP_0636/PP_0637 | cold shock DNA‑binding domain‑containing protein/transposase |
| ? | NC_002947 | 2559164 = | 0 (0.000) | coding (153/1881 nt) | PP_2240 | ABC transporter permease/ATP‑binding protein | |||||
| * | ? | NC_002947 | = 1011323 | 14 (0.730) | 3 (0.160) | 3/244 | NT | 18.8% | intergenic (‑258/+192) | PP_0871/SBRG_Ecoli_galM | glycine betaine/carnitine/choline ABC transporter permease/SBRG_Ecoli_galM |
| ? | NC_002947 | 1016273 = | 12 (0.620) | intergenic (‑500/‑268) | SBRG_Ecoli_galE/prfC | SBRG_Ecoli_galE/peptide chain release factor 3 | |||||
| * | ? | NC_002947 | 1622749 = | 10 (0.520) | 16 (0.980) | 7/206 | NT | 62.2% | intergenic (‑13/+160) | PP_1417/PP_1418 | tricarboxylate transport protein TctB/tricarboxylate transport protein TctC |
| ? | NC_002947 | 1622888 = | 11 (0.680) | intergenic (‑152/+21) | PP_1417/PP_1418 | tricarboxylate transport protein TctB/tricarboxylate transport protein TctC | |||||
| * | ? | NC_002947 | 2477094 = | 8 (0.410) | 13 (0.990) | 5/166 | NT | 65.9% | intergenic (+6/+143) | PP_2166/PP_2167 | anti‑anti‑sigma factor/PhoD‑like phosphatase |
| ? | NC_002947 | 2477218 = | 8 (0.610) | intergenic (+130/+19) | PP_2166/PP_2167 | anti‑anti‑sigma factor/PhoD‑like phosphatase | |||||
| * | ? | NC_002947 | = 2559172 | 0 (0.000) | 17 (0.880) | 14/244 | NT | 100% | coding (161/1881 nt) | PP_2240 | ABC transporter permease/ATP‑binding protein |
| ? | NC_002947 | 4541196 = | NA (NA) | intergenic (+730/‑85) | PP_4022/PP_4024 | hypothetical protein/transposase | |||||
| * | ? | NC_002947 | = 4813173 | 0 (0.000) | 38 (2.180) | 9/220 | NT | 51.7% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 5993770 = | 71 (4.080) | intergenic (+59/‑487) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 4857447 | 2 (0.100) | 21 (1.640) | 6/162 | NT | 83.5% | intergenic (‑124/+173) | recR/ybaB | recombination protein RecR/nucleoid‑associated broad specificity regulator |
| ? | NC_002947 | = 4857506 | 7 (0.550) | intergenic (‑183/+114) | recR/ybaB | recombination protein RecR/nucleoid‑associated broad specificity regulator | |||||