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 | 37,053 | C→A | 6.3% | V258L (GTA→TTA) | caiC ← | putative crotonobetaine/carnitine‑CoA ligase |
| RA | 208,388 | C→A | 6.5% | H9N (CAT→AAT) | yaeR → | putative lyase |
| RA | 221,373:1 | +G | 7.0% | noncoding (1116/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,380 | T→A | 7.1% | noncoding (1123/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,390 | Δ1 bp | 6.7% | noncoding (1133/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,391 | G→A | 6.7% | noncoding (1134/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,393 | C→T | 7.2% | noncoding (1136/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,395 | G→A | 7.5% | noncoding (1138/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,397 | C→T | 7.1% | noncoding (1140/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,398 | C→T | 7.5% | noncoding (1141/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,402 | A→C | 7.3% | noncoding (1145/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,407 | A→T | 7.8% | noncoding (1150/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,412 | A→T | 7.8% | noncoding (1155/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,420 | A→G | 8.1% | noncoding (1163/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,425 | T→C | 10.5% | noncoding (1168/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,430 | T→C | 10.9% | noncoding (1173/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,455 | G→A | 11.2% | noncoding (1198/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,464 | G→C | 12.9% | noncoding (1207/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,471 | C→T | 12.8% | noncoding (1214/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,476 | A→T | 14.5% | noncoding (1219/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 239,307 | G→T | 5.7% | H162N (CAT→AAT) | fadE ← | acyl coenzyme A dehydrogenase |
| RA | 249,874 | G→C | 7.3% | intergenic (+226/‑92) | yafP → / → ykfJ | putative acyl‑CoA transferase/pseudogene |
| RA | 249,908 | A→G | 9.7% | intergenic (+260/‑58) | yafP → / → ykfJ | putative acyl‑CoA transferase/pseudogene |
| RA | 370,428 | T→C | 5.8% | intergenic (+91/‑487) | mhpE → / → mhpT | 4‑hyroxy‑2‑oxovalerate/4‑hydroxy‑2‑oxopentanoic acid aldolase, class I/3‑hydroxyphenylpropionic transporter |
| RA | 370,442 | T→C | 7.5% | intergenic (+105/‑473) | mhpE → / → mhpT | 4‑hyroxy‑2‑oxovalerate/4‑hydroxy‑2‑oxopentanoic acid aldolase, class I/3‑hydroxyphenylpropionic transporter |
| RA | 372,808 | G→A | 5.0% | intergenic (+41/+183) | yaiL → / ← frmB | DUF2058 family protein/S‑formylglutathione hydrolase |
| RA | 393,301 | C→A | 5.2% | H403N (CAT→AAT) | sbmA → | microcin B17 transporter |
| RA | 405,420 | C→A | 7.7% | R19L (CGT→CTT) | rdgC ← | nucleoid‑associated ssDNA and dsDNA binding protein; competitive inhibitor of RecA function |
| RA | 410,344 | G→T | 5.0% | A289E (GCA→GAA) | sbcC ← | exonuclease, dsDNA, ATP‑dependent |
| RA | 474,074 | C→T | 8.3% | intergenic (‑1/+163) | ylaB ← / ← ylaC | putative membrane‑anchored cyclic‑di‑GMP phosphodiesterase/DUF1449 family inner membrane protein |
| RA | 476,665 | G→A | 9.3% | intergenic (‑501/+45) | tomB ← / ← acrB | Hha toxicity attenuator; conjugation‑related protein/multidrug efflux system protein |
| RA | 641,405 | G→T | 5.7% | T211N (ACC→AAC) | citT ← | citrate:succinate antiporter |
| RA | 709,713 | G→T | 6.9% | D234Y (GAT→TAT) | pgm → | phosphoglucomutase |
| RA | 727,369 | A→G | 5.5% | A777A (GCA→GCG) | rhsC → | Rhs family putative polymorphic toxin |
| RA | 727,375 | A→G | 5.3% | G779G (GGA→GGG) | rhsC → | Rhs family putative polymorphic toxin |
| RA | 730,138 | A→G | 8.9% | pseudogene (550/1521 nt) | rhsO → | pseudogene, Rhs family protein |
| RA | 732,050 | C→T | 9.6% | pseudogene (150/240 nt) | ybfQ → | pseudogene, H repeat‑associated protein |
| RA | 763,964 | G→A | 6.3% | V177V (GTG→GTA) | mngB → | alpha‑mannosidase |
| RA | 776,297:1 | +T | 7.9% | intergenic (+1/‑2) | valT → / → lysW | tRNA‑Val/tRNA‑Lys |
| RA | 798,866 | G→T | 5.2% | intergenic (+90/‑93) | ybhI → / → ybhJ | putative transporter/putative hydratase |
| RA | 878,439 | C→A | 6.9% | A136S (GCC→TCC) | ybjG ← | undecaprenyl pyrophosphate phosphatase |
| RA | 888,008:1 | +T | 5.6% | coding (586/903 nt) | rimK → | ribosomal protein S6 modification protein |
| RA | 888,008:2 | +C | 5.6% | coding (586/903 nt) | rimK → | ribosomal protein S6 modification protein |
| RA | 888,008:3 | +A | 5.6% | coding (586/903 nt) | rimK → | ribosomal protein S6 modification protein |
| RA | 888,008:4 | +G | 5.6% | coding (586/903 nt) | rimK → | ribosomal protein S6 modification protein |
| RA | 888,008:5 | +T | 5.6% | coding (586/903 nt) | rimK → | ribosomal protein S6 modification protein |
| RA | 888,010:1 | +C | 5.6% | coding (588/903 nt) | rimK → | ribosomal protein S6 modification protein |
| RA | 888,011:1 | +C | 5.6% | coding (589/903 nt) | rimK → | ribosomal protein S6 modification protein |
| RA | 888,014:1 | +C | 5.9% | coding (592/903 nt) | rimK → | ribosomal protein S6 modification protein |
| RA | 888,014:2 | +C | 5.9% | coding (592/903 nt) | rimK → | ribosomal protein S6 modification protein |
| RA | 910,669 | A→T | 15.2% | intergenic (‑356/+139) | ybjE ← / ← aqpZ | putative transporter/aquaporin Z |
| RA | 910,682 | T→G | 9.5% | intergenic (‑369/+126) | ybjE ← / ← aqpZ | putative transporter/aquaporin Z |
| RA | 979,869 | A→T | 8.5% | intergenic (+116/+106) | ycbL → / ← aspC | putative metal‑binding enzyme/aspartate aminotransferase, PLP‑dependent |
| RA | 989,498 | C→A | 5.3% | M1M (ATG→ATT) † *264L (TGA→TTA) |
ssuB ← ssuC ← |
alkanesulfonate transporter subunit putative alkanesulfonate transporter subunit |
| RA | 1,005,156 | C→A | 7.0% | F619L (TTC→TTA) | rlmL → | fused 23S rRNA m(2)G2445 and m(7)G2069 methyltransferase, SAM‑dependent |
| RA | 1,025,577 | C→A | 5.3% | R20S (CGC→AGC) | yccX → | weak acylphosphatase |
| RA | 1,072,494 | C→A | 5.3% | G615G (GGG→GGT) | putA ← | fused DNA‑binding transcriptional regulator/proline dehydrogenase/pyrroline‑5‑carboxylate dehydrogenase |
| RA | 1,074,183 | C→A | 6.4% | E52D (GAG→GAT) | putA ← | fused DNA‑binding transcriptional regulator/proline dehydrogenase/pyrroline‑5‑carboxylate dehydrogenase |
| RA | 1,117,106 | G→T | 5.4% | Q320K (CAA→AAA) | pyrC ← | dihydro‑orotase |
| RA | 1,117,873:1 | +G | 7.9% | coding (191/1047 nt) | pyrC ← | dihydro‑orotase |
| RA | 1,117,873:2 | +A | 7.9% | coding (191/1047 nt) | pyrC ← | dihydro‑orotase |
| RA | 1,117,873:3 | +C | 7.9% | coding (191/1047 nt) | pyrC ← | dihydro‑orotase |
| RA | 1,117,873:4 | +A | 7.9% | coding (191/1047 nt) | pyrC ← | dihydro‑orotase |
| RA | 1,117,873:5 | +G | 7.9% | coding (191/1047 nt) | pyrC ← | dihydro‑orotase |
| RA | 1,176,208 | C→A | 6.7% | Q172H (CAG→CAT) | ycfZ ← | inner membrane protein |
| RA | 1,191,604 | G→A | 5.5% | A342A (GCG→GCA) | icd → | e14 prophage; isocitrate dehydrogenase, specific for NADP+ |
| RA | 1,203,094 | A→G | 7.8% | E46E (GAA→GAG) | stfP → | e14 prophage; uncharacterized protein |
| RA | 1,203,106 | G→T | 8.4% | V50V (GTG→GTT) | stfP → | e14 prophage; uncharacterized protein |
| RA | 1,203,115 | A→C | 8.1% | A53A (GCA→GCC) | stfP → | e14 prophage; uncharacterized protein |
| RA | 1,204,059 | C→T | 6.4% | A173T (GCT→ACT) | tfaE ← | e14 prophage; putative tail fiber assembly protein |
| RA | 1,204,068 | T→G | 6.2% | R170R (AGA→CGA) | tfaE ← | e14 prophage; putative tail fiber assembly protein |
| RA | 1,204,071 | T→A | 5.7% | T169S (ACC→TCC) | tfaE ← | e14 prophage; putative tail fiber assembly protein |
| RA | 1,204,072 | T→G | 5.7% | T168T (ACA→ACC) | tfaE ← | e14 prophage; putative tail fiber assembly protein |
| RA | 1,204,075 | T→C | 5.7% | E167E (GAA→GAG) | tfaE ← | e14 prophage; putative tail fiber assembly protein |
| RA | 1,211,396 | C→T | 8.3% | A51V (GCC→GTC) | ycgZ → | RcsB connector protein for regulation of biofilm and acid‑resistance |
| RA | 1,223,578 | C→T | 5.6% | P15L (CCG→CTG) | ycgM → | putative isomerase/hydrolase |
| RA | 1,265,505 | A→G | 6.1% | intergenic (+126/+189) | rdlB → / ← ldrC | sRNA antisense regulator affects LdrB translation; proposed addiction module in LDR‑B repeat, with toxic peptide LdrB/toxic polypeptide, small |
| RA | 1,265,875 | T→C | 5.6% | noncoding (27/68 nt) | rdlC → | sRNA antisense regulator affects LdrC translation; proposed addiction module in LDR‑C repeat, with toxic peptide LdrC |
| RA | 1,266,001 | G→T | 8.2% | intergenic (+85/+204) | rdlC → / ← chaA | sRNA antisense regulator affects LdrC translation; proposed addiction module in LDR‑C repeat, with toxic peptide LdrC/calcium/sodium:proton antiporter |
| RA | 1,282,249 | A→G | 10.3% | intergenic (+267/+273) | narI → / ← rttR | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/rtT sRNA, processed from tyrT transcript |
| RA | 1,282,497 | A→G | 5.5% | intergenic (+515/+25) | narI → / ← rttR | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/rtT sRNA, processed from tyrT transcript |
| RA | 1,340,899 | G→A | 7.4% | T34I (ACC→ATC) | gmr ← | cyclic‑di‑GMP phosphodiesterase; csgD regulator; modulator of Rnase II stability |
| RA | 1,370,568 | G→A | 6.6% | G93D (GGT→GAT) | ycjR → | putative TIM alpha/beta barrel enzyme |
| RA | 1,397,679 | C→T | 10.8% | A382T (GCC→ACC) | abgA ← | p‑aminobenzoyl‑glutamate hydrolase, A subunit |
| RA | 1,417,264 | G→T | 7.9% | pseudogene (307/500 nt) | ydaW → | Rac prophage; pseudogene, DNA‑binding protein family;Phage or Prophage Related |
| RA | 1,422,040 | A→G | 10.3% | pseudogene (944/981 nt) | insH1 ← | IS5 transposase and trans‑activator;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 1,422,060 | G→C | 11.7% | pseudogene (924/981 nt) | insH1 ← | IS5 transposase and trans‑activator;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 1,422,798 | A→G | 5.2% | pseudogene (186/981 nt) | insH1 ← | IS5 transposase and trans‑activator;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 1,430,828 | C→A | 5.0% | G108V (GGT→GTT) | ompN ← | outer membrane pore protein N, non‑specific |
| RA | 1,460,752 | C→T | 12.9% | pseudogene (1104/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,460,761 | A→G | 11.9% | pseudogene (1113/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,460,896 | C→T | 7.9% | pseudogene (1248/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,484,439 | C→T | 6.3% | pseudogene (532/750 nt) | gapC ← | pseudogene, GAP dehydrogenase; glyceraldehyde‑3‑phosphate dehydrogenase (second fragment) |
| RA | 1,513,262 | G→A | 5.7% | intergenic (‑159/‑22) | mnaT ← / → curA | methionine N‑acyltransferase; L‑amino acid N‑acyltransferase/curcumin/dihydrocurcumin reductase, NADPH‑dependent |
| RA | 1,534,215 | G→A | 6.3% | P878L (CCA→CTA) | narZ ← | nitrate reductase 2 (NRZ), alpha subunit |
| RA | 1,534,412 | C→A | 10.1% | A812A (GCG→GCT) | narZ ← | nitrate reductase 2 (NRZ), alpha subunit |
| RA | 1,544,807 | C→G | 5.8% | V30V (GTC→GTG) | fdnH → | formate dehydrogenase‑N, Fe‑S (beta) subunit, nitrate‑inducible |
| RA | 1,544,810 | A→G | 5.8% | A31A (GCA→GCG) | fdnH → | formate dehydrogenase‑N, Fe‑S (beta) subunit, nitrate‑inducible |
| RA | 1,544,816 | T→C | 5.9% | L33L (CTT→CTC) | fdnH → | formate dehydrogenase‑N, Fe‑S (beta) subunit, nitrate‑inducible |
| RA | 1,544,826 | T→A | 7.2% | S37T (TCC→ACC) | fdnH → | formate dehydrogenase‑N, Fe‑S (beta) subunit, nitrate‑inducible |
| RA | 1,544,867 | G→A | 8.6% | S50S (TCG→TCA) | fdnH → | formate dehydrogenase‑N, Fe‑S (beta) subunit, nitrate‑inducible |
| RA | 1,590,264 | C→A | 5.8% | pseudogene (1981/5323 nt) | yneO ← | pseudogene, AidA homolog |
| RA | 1,601,074 | T→C | 6.9% | W240R (TGG→CGG) | lsrF → | putative autoinducer‑2 (AI‑2) aldolase |
| RA | 1,602,206 | T→C | 8.0% | L202L (TTA→CTA) | tam → | trans‑aconitate methyltransferase |
| RA | 1,618,456 | C→A | 12.3% | R100L (CGA→CTA) | ydeI ← | hydrogen peroxide resistance OB fold protein; putative periplasmic protein |
| RA | 1,630,430 | T→C | 7.3% | pseudogene (195/528 nt) | nohQ ← | pseudogene, Qin prophage; Phage DNA packaging protein Nu1 family;Phage or Prophage Related; DNA packaging protein NU1 homolog from lambdoid prophage Qin |
| RA | 1,681,324 | G→T | 16.8% | G437G (GGC→GGA) | fumA ← | fumarate hydratase (fumarase A), aerobic Class I |
| RA | 1,702,975 | G→A | 9.8% | A600A (GCG→GCA) | rsxC → | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| RA | 1,703,015 | G→C | 12.0% | E614Q (GAA→CAA) | rsxC → | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| RA | 1,733,972 | G→T | 6.1% | R28R (CGC→CGA) | ydhB ← | LysR family putative transcriptional regulator |
| RA | 1,789,902 | C→A | 6.3% | R767L (CGT→CTT) | pheT ← | phenylalanine tRNA synthetase, beta subunit |
| RA | 1,834,538 | C→A | 5.5% | T272K (ACG→AAG) | ynjE → | molybdopterin synthase sulfurtransferase |
| RA | 1,905,540 | G→T | 5.0% | L336L (CTG→CTT) | yebQ → | putative transporter |
| RA | 1,920,365 | C→A | 5.2% | intergenic (+12/‑12) | yobB → / → exoX | C‑N hydrolase family protein/exodeoxyribonuclease 10; DNA exonuclease X |
| RA | 1,952,722 | C→T | 7.0% | intergenic (‑333/+55) | torY ← / ← cutC | TMAO reductase III (TorYZ), cytochrome c‑type subunit/copper homeostasis protein |
| RA | 1,997,356 | G→A | 6.8% | A2T (GCA→ACA) | fliD → | flagellar filament capping protein |
| RA | 2,059,656 | T→C | 5.3% | intergenic (‑21/+130) | yeeH ← / ← insH1 | pseudogene/IS5 transposase and trans‑activator |
| RA | 2,150,043 | C→T | 7.8% | L434F (CTC→TTC) | mdtB → | multidrug efflux system, subunit B |
| RA | 2,165,949 | G→A | 8.7% | P136S (CCT→TCT) | gatD ← | galactitol‑1‑phosphate dehydrogenase, Zn‑dependent and NAD(P)‑binding |
| RA | 2,169,217 | T→C | 5.1% | N195S (AAT→AGT) | gatZ ← | D‑tagatose 1,6‑bisphosphate aldolase 2, subunit |
| RA | 2,170,724 | G→T | 21.1% | intergenic (‑41/+267) | gatY ← / ← fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| RA | 2,245,268 | C→T | 7.1% | S30S (AGC→AGT) | yeiI → | putative kinase |
| RA | 2,298,128 | C→T | 6.4% | intergenic (+256/+459) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,327,175 | C→A | 5.1% | pseudogene (707/4605 nt) | yfaS ← | pseudogene, bacterial alpha2‑macroglobulin YfaS variant family; putative membrane protein |
| RA | 2,366,384 | G→T | 7.3% | W5L (TGG→TTG) | arnF → | undecaprenyl phosphate‑alpha‑L‑ara4N exporter; flippase ArnEF subunit |
| RA | 2,415,687 | G→T | 6.2% | L167L (CTG→CTT) | yfcH → | putative NAD‑dependent nucleotide‑sugar epimerase |
| RA | 2,454,695 | T→C | 5.4% | intergenic (‑282/‑90) | yfcZ ← / → fadL | UPF0381 family protein/long‑chain fatty acid outer membrane transporter |
| RA | 2,459,291 | C→T | 5.3% | A171V (GCA→GTA) | yfdC → | putative inner membrane protein |
| RA | 2,465,506 | G→T | 7.5% | pseudogene (96/579 nt) | yfdL ← | pseudogene, CPS‑53 (KpLE1) prophage;Phage or Prophage Related |
| RA | 2,495,072:1 | +G | 6.7% | coding (464/858 nt) | ypdC → | putative DNA‑binding protein |
| RA | 2,495,072:2 | +G | 6.7% | coding (464/858 nt) | ypdC → | putative DNA‑binding protein |
| RA | 2,495,072:3 | +A | 6.7% | coding (464/858 nt) | ypdC → | putative DNA‑binding protein |
| RA | 2,495,072:4 | +T | 6.7% | coding (464/858 nt) | ypdC → | putative DNA‑binding protein |
| RA | 2,495,072:5 | +G | 6.7% | coding (464/858 nt) | ypdC → | putative DNA‑binding protein |
| RA | 2,495,072:6 | +A | 6.7% | coding (464/858 nt) | ypdC → | putative DNA‑binding protein |
| RA | 2,514,609 | Δ1 bp | 12.5% | intergenic (+2/‑3) | valY → / → lysV | tRNA‑Val/tRNA‑Lys |
| RA | 2,675,504 | G→A | 5.2% | H201Y (CAT→TAT) | yphG ← | DUF4380 domain‑containing TPR repeat protein |
| RA | 2,677,519 | A→T | 9.5% | intergenic (+104/+94) | yphH → / ← glyA | putative DNA‑binding transcriptional regulator/serine hydroxymethyltransferase |
| RA | 2,719,426 | T→C | 90.1% | intergenic (‑321/+2) | kgtP ← / ← rrfG | alpha‑ketoglutarate transporter/5S ribosomal RNA of rrnG operon |
| RA | 2,734,100 | A→G | 5.1% | M137T (ATG→ACG) | aroF ← | 3‑deoxy‑D‑arabino‑heptulosonate‑7‑phosphate synthase, tyrosine‑repressible |
| RA | 2,761,364 | T→C | 6.0% | V99A (GTT→GCT) | yfjP → | CP4‑57 prophage; 50S ribosome‑binding GTPase family protein |
| RA | 2,761,401 | A→G | 6.0% | Q111Q (CAA→CAG) | yfjP → | CP4‑57 prophage; 50S ribosome‑binding GTPase family protein |
| RA | 2,762,982 | C→T | 5.3% | intergenic (+137/‑80) | yfjQ → / → yfjR | CP4‑57 prophage; uncharacterized protein/CP4‑57 prophage; putative DNA‑binding transcriptional regulator |
| RA | 2,762,984 | T→G | 8.2% | intergenic (+139/‑78) | yfjQ → / → yfjR | CP4‑57 prophage; uncharacterized protein/CP4‑57 prophage; putative DNA‑binding transcriptional regulator |
| RA | 2,776,157 | A→G | 6.3% | intergenic (‑72/+267) | ypjA ← / ← pinH | adhesin‑like autotransporter/pseudogene, invertase resolvase family |
| RA | 2,846,644 | G→T | 7.0% | G11V (GGC→GTC) | hypE → | carbamoyl dehydratase, hydrogenases 1,2,3 maturation protein |
| RA | 2,881,277 | T→C | 6.4% | N132S (AAT→AGT) | cysH ← | phosphoadenosine phosphosulfate reductase; PAPS reductase, thioredoxin dependent |
| RA | 2,900,974 | G→A | 6.7% | N109N (AAC→AAT) | eno ← | enolase |
| RA | 2,920,256 | C→T | 6.2% | A197V (GCT→GTT) | ygdH → | UPF0717 family protein |
| RA | 3,085,380 | T→C | 5.5% | G48G (GGT→GGC) | gshB → | glutathione synthetase |
| RA | 3,085,382 | A→C | 5.2% | E49A (GAA→GCA) | gshB → | glutathione synthetase |
| RA | 3,085,384 | G→T | 5.1% | A50S (GCC→TCC) | gshB → | glutathione synthetase |
| RA | 3,188,333 | C→T | 6.7% | intergenic (‑109/+125) | sibD ← / ← sibE | sRNA antisense regulator of toxic IbsD protein/sRNA antisense regulator of toxic IbsE protein |
| RA | 3,263,315 | T→C | 8.0% | intergenic (+354/+260) | yhaC → / ← rnpB | pentapetide repeats‑related protein/RNase P, M1 RNA component |
| RA | 3,416,890 | T→G | 13.4% | noncoding (12/120 nt) | rrfF ← | 5S ribosomal RNA of rrnD operon |
| RA | 3,416,899 | A→G | 15.1% | noncoding (3/120 nt) | rrfF ← | 5S ribosomal RNA of rrnD operon |
| RA | 3,464,590 | G→A | 6.4% | T33T (ACC→ACT) | tufA ← | translation elongation factor EF‑Tu 1 |
| RA | 3,490,604 | C→A | 5.1% | T81T (ACC→ACA) | nirC → | nitrite transporter |
| RA | 3,498,226 | T→G | 13.7% | intergenic (+84/+68) | frlR → / ← yhfS | putative DNA‑binding transcriptional regulator/FNR‑regulated pyridoxal phosphate‑dependent aminotransferase family protein |
| RA | 3,498,239 | A→C | 6.6% | intergenic (+97/+55) | frlR → / ← yhfS | putative DNA‑binding transcriptional regulator/FNR‑regulated pyridoxal phosphate‑dependent aminotransferase family protein |
| RA | 3,498,242 | G→C | 6.9% | intergenic (+100/+52) | frlR → / ← yhfS | putative DNA‑binding transcriptional regulator/FNR‑regulated pyridoxal phosphate‑dependent aminotransferase family protein |
| RA | 3,510,110 | G→T | 7.4% | P186T (CCG→ACG) | damX ← | cell division protein that binds to the septal ring |
| RA | 3,603,552 | G→T | 5.9% | G80W (GGG→TGG) | dcrB → | putative lipoprotein |
| RA | 3,616,121 | G→C | 5.8% | R1190R (CGG→CGC) | rhsB → | Rhs family putative polymorphic toxin, putative neighboring cell growth inhibitor |
| RA | 3,716,387 | C→A | 5.7% | K457N (AAG→AAT) | glyS ← | glycine tRNA synthetase, beta subunit |
| RA | 3,760,577 | C→T | 6.0% | intergenic (+38/‑4) | yibA → / → rhsJ | HEAT‑domain lethality reduction protein; putative immunity protein for putative polymorphic toxin RhsA/Rhs‑family protein |
| RA | 3,760,578 | A→G | 6.1% | intergenic (+39/‑3) | yibA → / → rhsJ | HEAT‑domain lethality reduction protein; putative immunity protein for putative polymorphic toxin RhsA/Rhs‑family protein |
| RA | 3,760,579:1 | +T | 6.1% | intergenic (+40/‑2) | yibA → / → rhsJ | HEAT‑domain lethality reduction protein; putative immunity protein for putative polymorphic toxin RhsA/Rhs‑family protein |
| RA | 3,951,990 | G→T | 5.7% | E221* (GAG→TAG) | ilvC → | ketol‑acid reductoisomerase, NAD(P)‑binding |
| RA | 3,979,173 | C→T | 7.9% | P65P (CCG→CCA) | aslA ← | putative Ser‑type periplasmic non‑aryl sulfatase |
| RA | 4,034,209 | G→T | 5.0% | intergenic (+213/+57) | rrfA → / ← mobB | 5S ribosomal RNA of rrnA operon/molybdopterin‑guanine dinucleotide biosynthesis protein B |
| RA | 4,098,583 | G→A | 9.6% | intergenic (+141/‑179) | pfkA → / → sbp | 6‑phosphofructokinase I/sulfate transporter subunit |
| RA | 4,165,449 | C→T | 24.6% | noncoding (50/85 nt) | tyrU → | tRNA‑Tyr |
| RA | 4,165,450 | A→C | 24.6% | noncoding (51/85 nt) | tyrU → | tRNA‑Tyr |
| RA | 4,166,006 | C→T | 5.0% | R45R (CGC→CGT) | tufB → | translation elongation factor EF‑Tu 2 |
| RA | 4,173,132 | G→T | 6.3% | D654Y (GAC→TAC) | rpoB → | RNA polymerase, beta subunit |
| RA | 4,178,500 | C→T | 60.4% | R1075C (CGT→TGT) | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,228,437 | G→A | 5.1% | P292P (CCG→CCA) | yjbH → | DUF940 family extracellular polysaccharide protein |
| RA | 4,291,026:1 | +T | 6.6% | coding (1870/2052 nt) | mdtO ← | membrane translocase (MDR) of MdtNOP efflux pump, PET family |
| RA | 4,291,026:2 | +A | 6.6% | coding (1870/2052 nt) | mdtO ← | membrane translocase (MDR) of MdtNOP efflux pump, PET family |
| RA | 4,291,028:1 | +G | 6.6% | coding (1868/2052 nt) | mdtO ← | membrane translocase (MDR) of MdtNOP efflux pump, PET family |
| RA | 4,291,030 | G→C | 6.9% | A622A (GCC→GCG) | mdtO ← | membrane translocase (MDR) of MdtNOP efflux pump, PET family |
| RA | 4,292,471 | A→G | 5.3% | F142S (TTC→TCC) | mdtO ← | membrane translocase (MDR) of MdtNOP efflux pump, PET family |
| RA | 4,401,174 | G→A | 5.7% | R19H (CGT→CAT) | yjfK → | DUF2491 family protein |
| RA | 4,441,597 | G→T | 5.6% | M241I (ATG→ATT) | ytfR → | putative ABC superfamily sugar transporter ATP‑binding subunit |
| RA | 4,441,641 | G→T | 7.6% | R256L (CGA→CTA) | ytfR → | putative ABC superfamily sugar transporter ATP‑binding subunit |
| RA | 4,446,477 | C→A | 5.2% | R292R (CGC→CGA) | mpl → | UDP‑N‑acetylmuramate:L‑alanyl‑gamma‑D‑glutamyl‑ meso‑diaminopimelate ligase |
| RA | 4,468,590 | G→A | 6.2% | A101T (GCA→ACA) | rraB → | protein inhibitor of RNase E |
| RA | 4,508,819 | G→C | 8.7% | pseudogene (282/504 nt) | insB1 → | IS1 transposase B;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 4,508,826 | G→A | 5.8% | pseudogene (289/504 nt) | insB1 → | IS1 transposase B;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 4,508,830 | A→G | 6.1% | pseudogene (293/504 nt) | insB1 → | IS1 transposase B;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 4,554,869 | C→A | 11.8% | V267F (GTT→TTT) | yjiM ← | putative 2‑hydroxyglutaryl‑CoA dehydratase |
| RA | 4,571,437 | C→A | 5.9% | D477Y (GAC→TAC) | hsdM ← | DNA methyltransferase M |
| RA | 4,600,751 | C→A | 5.6% | S507R (AGC→AGA) | prfC → | peptide chain release factor RF‑3 |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | CP009273 | 3432050 | 3432502 | 453 | 16 [14] | [13] 15 | zntR–[yhdN] | zntR,[yhdN] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 335670 = | 142 (1.530) | 7 (0.100) +28 bp |
3/192 | NT | 7.4% | noncoding (203/358 nt) | REP23 (repetitive extragenic palindromic) element; contains 8 REP sequences | REP23 (repetitive extragenic palindromic) element; contains 8 REP sequences |
| ? | CP009273 | 372889 = | 85 (0.920) | noncoding (99/187 nt) | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | |||||
| * | ? | CP009273 | 360104 = | 82 (0.890) | 92 (0.990) | 34/248 | NT | 52.9% | intergenic (‑38/+557) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor |
| ? | CP009273 | = 360286 | NA (NA) | intergenic (‑220/+375) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor | |||||
| * | ? | CP009273 | 370378 = | NA (NA) | 20 (0.230) | 11/232 | NT | NA | intergenic (+41/‑537) | mhpE/mhpT | 4‑hyroxy‑2‑oxovalerate/4‑hydroxy‑2‑oxopentanoic acid aldolase, class I/3‑hydroxyphenylpropionic transporter |
| ? | CP009273 | 372785 = | NA (NA) | intergenic (+18/+206) | yaiL/frmB | DUF2058 family protein/S‑formylglutathione hydrolase | |||||
| * | ? | CP009273 | = 370385 | 169 (2.520) | 23 (0.380) | 6/162 | NT | 13.1% | intergenic (+48/‑530) | mhpE/mhpT | 4‑hyroxy‑2‑oxovalerate/4‑hydroxy‑2‑oxopentanoic acid aldolase, class I/3‑hydroxyphenylpropionic transporter |
| ? | CP009273 | = 372977 | NA (NA) | noncoding (187/187 nt) | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | |||||
| * | ? | CP009273 | 370386 = | NA (NA) | 13 (0.200) | 8/174 | NT | 14.2% | noncoding (1/436 nt) | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | CP009273 | 372878 = | 86 (1.210) | noncoding (88/187 nt) | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | |||||
| * | ? | CP009273 | 370386 = | NA (NA) | 36 (0.600) | 12/162 | NT | 47.1% | noncoding (1/436 nt) | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | CP009273 | 372978 = | 45 (0.670) | intergenic (+211/+13) | yaiL/frmB | DUF2058 family protein/S‑formylglutathione hydrolase | |||||
| * | ? | CP009273 | = 370414 | 172 (1.860) | 6 (0.090) | 3/174 | NT | 5.5% | noncoding (29/436 nt) | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | CP009273 | = 372848 | 85 (1.310) | noncoding (58/187 nt) | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | |||||
| * | ? | CP009273 | 370479 = | 110 (1.190) | 8 (0.130) | 6/164 | NT | 12.0% | noncoding (94/436 nt) | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | CP009273 | 372986 = | 45 (0.740) | intergenic (+219/+5) | yaiL/frmB | DUF2058 family protein/S‑formylglutathione hydrolase | |||||
| * | ? | CP009273 | 370580 = | 124 (1.340) | 8 (0.130) | 7/164 | NT | 11.2% | noncoding (195/436 nt) | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | CP009273 | 372986 = | 45 (0.740) | intergenic (+219/+5) | yaiL/frmB | DUF2058 family protein/S‑formylglutathione hydrolase | |||||
| * | ? | CP009273 | 1203246 = | 21 (0.230) | 29 (0.360) | 18/216 | NT | 68.0% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | 1205075 = | 9 (0.110) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | = 1203261 | 21 (0.230) | 31 (0.380) | 15/216 | NT | 69.4% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | = 1205058 | 9 (0.110) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | 1972762 = | 55 (0.590) | 3 (0.030) | 3/248 | NT | 5.2% | intergenic (‑308/‑472) | flhD/uspC | flagellar class II regulon transcriptional activator, with FlhC/universal stress protein |
| ? | CP009273 | = 2283592 | NA (NA) | noncoding (1/1195 nt) | IS5 | repeat region | |||||
| * | ? | CP009273 | 1972854 = | 5 (0.050) | 49 (0.530) | 27/248 | NT | 90.7% | intergenic (‑400/‑380) | flhD/uspC | flagellar class II regulon transcriptional activator, with FlhC/universal stress protein |
| ? | CP009273 | 3576788 = | NA (NA) | intergenic (+10/‑55) | yrhA/insA | pseudogene, interrupted by IS1E/IS1 repressor TnpA | |||||
| * | ? | CP009273 | = 1972861 | 10 (0.110) | 79 (0.850) | 32/248 | NT | 88.8% | intergenic (‑407/‑373) | flhD/uspC | flagellar class II regulon transcriptional activator, with FlhC/universal stress protein |
| ? | CP009273 | = 3577555 | NA (NA) | intergenic (+15/‑1) | insB1/yrhA | IS1 transposase B/pseudogene, interrupted by IS1E | |||||