mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| RA | 109,960 | G→A | R561H (CGT→CAT) | secA → | protein translocation ATPase |
| RA | 113,438 | C→T | intergenic (+150/‑6) | yacM → / → guaC | protein YacM/GMP reductase |
| RA | 246,747 | G→T | S12S (TCG→TCT) | yafL → | NlpC/P60 family protein YafL |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| MC | 279,931 | Δ11,471 bp | between IS1 | yagB–insA3 | yagB, yagA, yagE, yagF, yagG, yagH, xynR, argF, argL, ykgS, insB3, insA3 |
| RA | 313,543 | G→A | intergenic (‑301/‑1748) | ykgR ← / → insE1 | putative membrane protein YkgR/IS3 element protein InsE |
| RA | 334,188 | G→A | I82I (ATC→ATT) | yahB ← | putative LysR‑type DNA‑binding transcriptional regulator YahB |
| RA | 339,935 | C→T | A56V (GCC→GTC) | yahH → | putative uncharacterized protein YahH |
| RA | 339,941 | C→T | T58I (ACT→ATT) | yahH → | putative uncharacterized protein YahH |
| RA | 339,958 | G→A | D64N (GAC→AAC) | yahH → | putative uncharacterized protein YahH |
| JC JC | 362,107 | IS5 (+) +4 bp | coding (1070‑1073/1254 nt) | lacY ← | lactose permease |
| RA | 466,169 | T→A | T382S (ACC→TCC) | ybaE ← | uncharacterized protein YbaE |
| RA | 480,295 | 2 bp→AA | coding (13‑14/219 nt) | hha ← | hemolysin expression‑modulating protein Hha |
| RA | 631,618 | Δ1 bp | coding (1725/2106 nt) | cstA → | pyruvate transporter CstA |
| MC JC | 678,921 | Δ8,930 bp | IS5‑mediated | [ybeT]–gltI | [ybeT], ybeU, djlC, hscC, rihA, gltL, gltK, gltJ, sroC, gltI |
| RA | 690,948 | G→A | V279V (GTC→GTT) | ybeX ← | CorC‑HlyC family protein YbeX |
| RA | 700,038 | G→A | H97Y (CAT→TAT) | umpH ← | UMP phosphatase |
| JC JC | 792,077 | IS2 (+) +5 bp | intergenic (‑22/+235) | galE ← / ← modF | UDP‑glucose 4‑epimerase/ABC family protein ModF |
| RA | 968,837 | G→A | D158N (GAT→AAT) | lpxK → | tetraacyldisaccharide 4'‑kinase |
| RA | 1,040,126 | G→T | L277L (CTG→CTT) | appB → | cytochrome bd‑II subunit 2 |
| RA | 1,061,935 | G→A | S46N (AGC→AAC) | torD → | trimethylamine‑N‑oxide reductase‑specific chaperone |
| RA | 1,111,727 | 2 bp→TT | coding (865‑866/2544 nt) | opgH → | osmoregulated periplasmic glucans biosynthesis protein H |
| RA | 1,169,836 | A→G | L180P (CTG→CCG) | ldtC ← | L,D‑transpeptidase LdtC |
| RA | 1,189,980 | A→G | T156T (ACT→ACC) | phoP ← | DNA‑binding transcriptional dual regulator PhoP |
| RA | 1,196,220 | C→T | H366H (CAC→CAT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,232 | C→T | T370T (ACC→ACT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,245 | T→C | L375M (TTA→CTG) | icd → | isocitrate dehydrogenase |
| RA | 1,196,247 | A→G | L375M (TTA→CTG) | icd → | isocitrate dehydrogenase |
| RA | 1,196,277 | C→T | N385N (AAC→AAT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,280 | G→C | A386A (GCG→GCC) | icd → | isocitrate dehydrogenase |
| RA | 1,196,283 | A→G | K387K (AAA→AAG) | icd → | isocitrate dehydrogenase |
| RA | 1,196,292 | C→T | T390T (ACC→ACT) | icd → | isocitrate dehydrogenase |
| JC JC | 1,217,464 | IS2 (–) +5 bp | coding (137‑141/1524 nt) | pdeG → | putative c‑di‑GMP phosphodiesterase PdeG |
| RA | 1,290,644 | G→T | E135* (GAA→TAA) | rssB → | regulator of RpoS |
| RA | 1,301,992 | A→T | N271Y (AAT→TAT) | oppA → | oligopeptide ABC transporter periplasmic binding protein |
| RA | 1,306,736 | T→G | S325A (TCC→GCC) | oppF → | murein tripeptide ABC transporter/oligopeptide ABC transporter ATP binding subunit OppF |
| RA | 1,310,770 | A→G | H32H (CAT→CAC) | yciI ← | protein YciI |
| RA | 1,337,394 | A→G | S522G (AGC→GGC) | acnA → | aconitate hydratase 1 |
| RA | 1,357,202 | C→T | intergenic (‑92/+221) | sapA ← / ← ymjA | putative periplasmic binding protein SapA/DUF2543 domain‑containing protein YmjA |
| RA | 1,358,859 | T→C | Y110C (TAT→TGT) | puuP ← | putrescine:H(+) symporter PuuP |
| RA | 1,381,704 | A→C | intergenic (+897/‑243) | ycjU → / → ompG | beta‑phosphoglucomutase/outer membrane porin G |
| RA | 1,383,033 | A→T | L310* (TTA→TAA) | ycjW ← | DNA‑binding transcriptional repressor YcjW |
| RA | 1,449,061 | T→G | intergenic (+43/+15) | feaB → / ← tynA | phenylacetaldehyde dehydrogenase/copper‑containing amine oxidase |
| RA | 1,484,291 | C→T | L411F (CTC→TTC) | hrpA → | ATP‑dependent 3'‑>5' RNA helicase HrpA |
| RA | 1,643,679 | A→T | L209Q (CTG→CAG) | ydfU ← | protein YdfU |
| RA | 1,652,331 | T→C | intergenic (+2346/+397) | ydfD → / ← ynfP | lysis protein/protein YnfP |
| JC JC | 1,656,167 | IS2 (–) +5 bp | intergenic (+18/‑13) | ynfB → / → speG | DUF1283 domain‑containing protein YnfB/spermidine N‑acetyltransferase |
| JC JC | 1,671,703 | IS2 (–) +5 bp | intergenic (+19/‑70) | asr → / → ydgU | periplasmic chaperone Asr/uncharacterized protein YdgU |
| RA | 1,703,430 | C→T | L293L (TTG→TTA) | ydgJ ← | putative oxidoreductase YdgJ |
| RA | 1,721,136 | C→T | L38F (CTT→TTT) | ydhI → | DUF1656 domain‑containing protein YdhI |
| JC JC | 1,743,490 | IS5 (+) +4 bp | coding (34‑37/1374 nt) | mdtK → | multidrug efflux pump MdtK |
| RA | 1,776,715 | A→T | S377C (AGT→TGT) | ydiF → | putative acetate‑CoA transferase YdiF |
| RA | 1,856,968 | T→A | I268F (ATT→TTT) | ydjI ← | L‑glycero‑L‑galacto‑octuluronate‑1‑phosphate aldolase |
| RA | 1,894,839 | T→C | L12P (CTC→CCC) | pabB → | aminodeoxychorismate synthase subunit 1 |
| RA | 1,987,499 | C→A | intergenic (+71/+8) | ftnB → / ← yecJ | putative ferritin‑like protein/DUF2766 domain‑containing protein YecJ |
| RA | 2,040,433 | C→A | A319D (GCC→GAC) | msrP → | protein‑L‑methionine sulfoxide reductase catalytic subunit MsrP |
| RA | 2,096,437 | Δ1 bp | coding (594/777 nt) | hisF → | imidazole glycerol phosphate synthase subunit HisF |
| RA | 2,173,363 | Δ2 bp | intergenic (‑490/+918) | gatD ← / ← gatB | galactitol‑1‑phosphate 5‑dehydrogenase/galactitol‑specific PTS enzyme IIB component |
| RA | 2,188,087 | T→C | T110A (ACG→GCG) | yehA ← | putative fimbrial adhesin YehA |
| RA | 2,239,760 | C→T | E197K (GAA→AAA) | mglB ← | D‑galactose/methyl‑galactoside ABC transporter periplasmic binding protein |
| RA | 2,384,808 | C→T | K305K (AAG→AAA) | yfbK ← | IPR002035/DUF3520 domain‑containing protein YfbK |
| RA | 2,410,419 | G→A | L312L (CTG→TTG) | yfbS ← | putative transporter YfbS |
| JC JC | 2,452,057 | IS2 (–) +5 bp | coding (276‑280/753 nt) | yfcS ← | putative fimbrial chaperone YfcS |
| RA | 2,484,827 | C→T | L152F (CTT→TTT) | evgS → | sensor histidine kinase EvgS |
| JC JC | 2,788,791 | IS5 (–) +4 bp | intergenic (‑2954/‑191) | ileY ← / → glaH | tRNA‑Ile/glutarate dioxygenase GlaH |
| MC JC | 2,867,280 | Δ8 bp | coding (265‑272/993 nt) | rpoS ← | RNA polymerase sigma factor RpoS |
| JC JC | 2,913,392 | IS2 (–) +5 bp | coding (256‑260/2235 nt) | relA ← | GDP/GTP pyrophosphokinase |
| JC JC | 3,067,128 | IS5 (–) +4 bp | coding (43‑46/897 nt) | ygfI ← | putative DNA‑binding transcriptional regulator YgfI |
| RA | 3,088,010 | 2 bp→TT | intergenic (+150/‑273) | metK → / → galP | methionine adenosyltransferase/galactose:H(+) symporter |
| RA | 3,101,039 | (C)7→8 | coding (585/720 nt) | yggN ← | DUF2884 domain‑containing protein YggN |
| JC JC | 3,136,515 | IS5 (+) +4 bp | intergenic (‑144/+145) | pitB ← / ← gss | metal phosphate:H(+) symporter PitB/fused glutathionylspermidine amidase/glutathionylspermidine synthetase |
| RA | 3,263,231 | T→A | T144S (ACC→TCC) | tdcD ← | propionate kinase |
| RA | 3,308,048 | G→A | Q293* (CAG→TAG) | nlpI ← | lipoprotein NlpI |
| RA | 3,316,428 | C→T | E367K (GAA→AAA) | nusA ← | transcription termination/antitermination protein NusA |
| RA | 3,336,411 | 2 bp→AT | coding (83‑84/1260 nt) | murA ← | UDP‑N‑acetylglucosamine 1‑carboxyvinyltransferase |
| JC JC | 3,367,057 | IS2 (–) +5 bp | coding (132‑136/717 nt) | yhcF → | DUF1120 domain‑containing protein YhcF |
| RA | 3,388,041 | T→G | T50P (ACG→CCG) | aaeB ← | aromatic carboxylic acid efflux pump subunit AaeB |
| RA | 3,436,697 | G→A | E60E (GAG→GAA) | trkA → | NAD‑binding component of Trk potassium transporters |
| JC JC | 3,437,349 | IS30 (–) +2 bp | coding (832‑833/1377 nt) | trkA → | NAD‑binding component of Trk potassium transporters |
| RA | 3,474,425 | T→G | K43T (AAA→ACA) | rpsL ← | 30S ribosomal subunit protein S12 |
| RA | 3,475,993 | T→C | T150A (ACC→GCC) | yheO ← | DNA‑binding transcriptional regulator YheO |
| RA | 3,560,455 | +G | intergenic (+589/+167) | rtcR → / ← glpG | DNA‑binding transcriptional activator RtcR/rhomboid protease GlpG |
| RA | 3,566,550 | G→A | T11M (ACG→ATG) | glgP ← | glycogen phosphorylase |
| RA | 3,629,921 | C→T | E228K (GAG→AAG) | yhiI ← | putative membrane fusion protein YhiI |
| JC JC | 3,638,509 | IS5 (–) +4 bp | coding (868‑871/1500 nt) | pitA → | metal phosphate:H(+) symporter PitA |
| RA | 3,682,515 | C→T | M311I (ATG→ATA) | dctA ← | C4 dicarboxylate/orotate:H(+) symporter |
| RA | 3,707,947 | C→A | intergenic (‑242/+669) | dppA ← / ← proK | dipeptide ABC transporter periplasmic binding protein/tRNA‑Pro |
| MC JC | 3,708,467 | Δ168 bp | [proK] | [proK] | |
| RA | 3,725,176 | T→G | E48A (GAG→GCG) | glyQ ← | glycine‑‑tRNA ligase subunit alpha |
| RA | 3,761,230 | G→A | S7F (TCC→TTC) | selA ← | selenocysteine synthase |
| RA | 3,771,979 | G→T | intergenic (‑235/‑302) | yibI ← / → mtlA | DUF3302 domain‑containing protein YibI/mannitol‑specific PTS enzyme IICBA component |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| JC | 3,822,651 | (CAGGAT)1→2 | coding (252/2109 nt) | spoT → | bifunctional (p)ppGpp synthase/hydrolase SpoT |
| RA | 3,823,162 | C→T | H255Y (CAC→TAC) | spoT → | bifunctional (p)ppGpp synthase/hydrolase SpoT |
| RA | 3,869,637 | C→A | L87L (CTC→CTA) | cbrA → | colicin M resistance protein |
| RA | 3,878,536 | G→A | Y528Y (TAC→TAT) | gyrB ← | DNA gyrase subunit B |
| RA | 3,912,074 | G→A | S532F (TCC→TTC) | glmS ← | L‑glutamine‑‑D‑fructose‑6‑phosphate aminotransferase |
| RA | 3,926,183 | G→A | G91G (GGC→GGT) | mioC ← | flavoprotein MioC |
| RA | 3,926,210 | T→C | A82A (GCA→GCG) | mioC ← | flavoprotein MioC |
| RA | 3,926,815 | C→T | Q63Q (CAG→CAA) | asnC ← | DNA‑binding transcriptional dual regulator AsnC |
| RA | 3,927,019 | G→A | intergenic (‑16/‑136) | asnC ← / → asnA | DNA‑binding transcriptional dual regulator AsnC/asparagine synthetase A |
| RA | 3,927,070 | A→T | intergenic (‑67/‑85) | asnC ← / → asnA | DNA‑binding transcriptional dual regulator AsnC/asparagine synthetase A |
| RA | 3,927,184 | T→C | R10R (CGT→CGC) | asnA → | asparagine synthetase A |
| RA | 3,927,217 | T→C | R21R (CGT→CGC) | asnA → | asparagine synthetase A |
| RA | 3,927,704 | G→T | G184W (GGG→TGG) | asnA → | asparagine synthetase A |
| RA | 3,927,736 | C→T | G194G (GGC→GGT) | asnA → | asparagine synthetase A |
| RA | 3,927,877 | G→T | P241P (CCG→CCT) | asnA → | asparagine synthetase A |
| RA | 3,927,904 | C→T | S250S (TCC→TCT) | asnA → | asparagine synthetase A |
| RA | 3,927,919 | T→C | R255R (CGT→CGC) | asnA → | asparagine synthetase A |
| RA | 3,927,922 | A→G | V256V (GTA→GTG) | asnA → | asparagine synthetase A |
| RA | 3,927,935 | C→T | L261L (CTG→TTG) | asnA → | asparagine synthetase A |
| RA | 3,927,946 | 2 bp→GT | coding (792‑793/993 nt) | asnA → | asparagine synthetase A |
| RA | 3,927,964 | C→T | D270D (GAC→GAT) | asnA → | asparagine synthetase A |
| RA | 3,927,973 | C→T | R273R (CGC→CGT) | asnA → | asparagine synthetase A |
| RA | 3,927,977 | G→C | E275Q (GAG→CAG) | asnA → | asparagine synthetase A |
| RA | 3,927,985 | G→A | E277E (GAG→GAA) | asnA → | asparagine synthetase A |
| RA | 3,928,057 | T→C | T301T (ACT→ACC) | asnA → | asparagine synthetase A |
| RA | 3,928,102 | A→T | G316G (GGA→GGT) | asnA → | asparagine synthetase A |
| RA | 3,930,314 | C→T | L260L (TTG→TTA) | ravA ← | regulatory ATPase RavA |
| RA | 3,930,650 | A→G | R148R (CGT→CGC) | ravA ← | regulatory ATPase RavA |
| MC JC | 3,931,455 | Δ7,037 bp | [kup]–[rbsR] | [kup], rbsD, rbsA, rbsC, rbsB, rbsZ, rbsK, [rbsR] | |
| RA | 3,952,642 | C→T | R53R (CGC→CGT) | ilvE → | branched‑chain‑amino‑acid aminotransferase |
| RA | 3,959,055 | T→C | I362I (ATT→ATC) | ilvC → | ketol‑acid reductoisomerase (NADP(+)) |
| RA | 3,959,100 | C→T | V377V (GTC→GTT) | ilvC → | ketol‑acid reductoisomerase (NADP(+)) |
| RA | 3,959,115 | T→C | I382I (ATT→ATC) | ilvC → | ketol‑acid reductoisomerase (NADP(+)) |
| RA | 3,959,121 | G→A | E384E (GAG→GAA) | ilvC → | ketol‑acid reductoisomerase (NADP(+)) |
| RA | 3,959,127 | A→T | A386A (GCA→GCT) | ilvC → | ketol‑acid reductoisomerase (NADP(+)) |
| RA | 3,959,130 | T→C | Y387Y (TAT→TAC) | ilvC → | ketol‑acid reductoisomerase (NADP(+)) |
| RA | 3,959,148 | G→A | E393E (GAG→GAA) | ilvC → | ketol‑acid reductoisomerase (NADP(+)) |
| RA | 3,959,220 | T→C | A417A (GCT→GCC) | ilvC → | ketol‑acid reductoisomerase (NADP(+)) |
| RA | 3,959,260 | T→C | L431L (TTG→CTG) | ilvC → | ketol‑acid reductoisomerase (NADP(+)) |
| MC JC | 3,959,446 | 55 bp→14 bp | intergenic (+1/+32) | ilvC → / ← ppiC | ketol‑acid reductoisomerase (NADP(+))/peptidyl‑prolyl cis‑trans isomerase C |
| RA | 3,959,538 | G→A | R92R (CGC→CGT) | ppiC ← | peptidyl‑prolyl cis‑trans isomerase C |
| RA | 3,959,544 | C→A | L90L (CTG→CTT) | ppiC ← | peptidyl‑prolyl cis‑trans isomerase C |
| RA | 3,959,562 | A→G | Y84Y (TAT→TAC) | ppiC ← | peptidyl‑prolyl cis‑trans isomerase C |
| RA | 3,959,565 | T→A | G83G (GGA→GGT) | ppiC ← | peptidyl‑prolyl cis‑trans isomerase C |
| RA | 3,959,577 | G→A | H79H (CAC→CAT) | ppiC ← | peptidyl‑prolyl cis‑trans isomerase C |
| RA | 3,959,589 | G→A | T75T (ACC→ACT) | ppiC ← | peptidyl‑prolyl cis‑trans isomerase C |
| RA | 3,959,619 | C→T | V65V (GTG→GTA) | ppiC ← | peptidyl‑prolyl cis‑trans isomerase C |
| RA | 3,959,730 | C→A | G28G (GGG→GGT) | ppiC ← | peptidyl‑prolyl cis‑trans isomerase C |
| RA | 3,959,894 | T→G | intergenic (‑81/‑783) | ppiC ← / → rep | peptidyl‑prolyl cis‑trans isomerase C/ATP‑dependent DNA helicase Rep |
| RA | 3,959,982 | A→G | intergenic (‑169/‑695) | ppiC ← / → rep | peptidyl‑prolyl cis‑trans isomerase C/ATP‑dependent DNA helicase Rep |
| RA | 3,960,002 | T→G | intergenic (‑189/‑675) | ppiC ← / → rep | peptidyl‑prolyl cis‑trans isomerase C/ATP‑dependent DNA helicase Rep |
| RA | 3,960,114 | C→T | intergenic (‑301/‑563) | ppiC ← / → rep | peptidyl‑prolyl cis‑trans isomerase C/ATP‑dependent DNA helicase Rep |
| RA | 3,960,209 | C→T | intergenic (‑396/‑468) | ppiC ← / → rep | peptidyl‑prolyl cis‑trans isomerase C/ATP‑dependent DNA helicase Rep |
| RA | 3,960,240 | T→A | intergenic (‑427/‑437) | ppiC ← / → rep | peptidyl‑prolyl cis‑trans isomerase C/ATP‑dependent DNA helicase Rep |
| RA | 3,960,251 | +A | intergenic (‑438/‑426) | ppiC ← / → rep | peptidyl‑prolyl cis‑trans isomerase C/ATP‑dependent DNA helicase Rep |
| RA | 3,960,284 | G→A | intergenic (‑471/‑393) | ppiC ← / → rep | peptidyl‑prolyl cis‑trans isomerase C/ATP‑dependent DNA helicase Rep |
| RA | 3,960,483 | C→A | intergenic (‑670/‑194) | ppiC ← / → rep | peptidyl‑prolyl cis‑trans isomerase C/ATP‑dependent DNA helicase Rep |
| RA | 3,960,553 | G→A | intergenic (‑740/‑124) | ppiC ← / → rep | peptidyl‑prolyl cis‑trans isomerase C/ATP‑dependent DNA helicase Rep |
| RA | 3,961,108 | T→C | N144N (AAT→AAC) | rep → | ATP‑dependent DNA helicase Rep |
| RA | 3,961,120 | A→T | T148T (ACA→ACT) | rep → | ATP‑dependent DNA helicase Rep |
| RA | 3,961,124 | T→G | S150A (TCC→GCG) | rep → | ATP‑dependent DNA helicase Rep |
| RA | 3,961,126 | C→G | S150A (TCC→GCG) | rep → | ATP‑dependent DNA helicase Rep |
| RA | 3,961,135 | A→G | A153A (GCA→GCG) | rep → | ATP‑dependent DNA helicase Rep |
| RA | 3,961,138 | +G | coding (462/2022 nt) | rep → | ATP‑dependent DNA helicase Rep |
| RA | 3,961,141 | Δ1 bp | coding (465/2022 nt) | rep → | ATP‑dependent DNA helicase Rep |
| RA | 3,961,144 | G→A | A156A (GCG→GCA) | rep → | ATP‑dependent DNA helicase Rep |
| RA | 3,961,146 | 2 bp→AG | coding (470‑471/2022 nt) | rep → | ATP‑dependent DNA helicase Rep |
| RA | 3,961,159 | C→T | D161D (GAC→GAT) | rep → | ATP‑dependent DNA helicase Rep |
| RA | 3,961,280 | A→G | K202E (AAG→GAG) | rep → | ATP‑dependent DNA helicase Rep |
| RA | 3,961,306 | T→C | Y210Y (TAT→TAC) | rep → | ATP‑dependent DNA helicase Rep |
| RA | 3,961,351 | G→A | E225E (GAG→GAA) | rep → | ATP‑dependent DNA helicase Rep |
| RA | 3,961,587 | C→T | S304F (TCC→TTC) | rep → | ATP‑dependent DNA helicase Rep |
| RA | 3,961,980 | C→T | A435V (GCC→GTC) | rep → | ATP‑dependent DNA helicase Rep |
| RA | 3,962,444 | G→A | D590N (GAT→AAT) | rep → | ATP‑dependent DNA helicase Rep |
| RA | 3,962,449 | G→A | E591E (GAG→GAA) | rep → | ATP‑dependent DNA helicase Rep |
| RA | 3,963,807 | T→A | G141G (GGA→GGT) | gpp ← | guanosine‑5'‑triphosphate,3'‑diphosphate phosphatase |
| RA | 3,963,843 | A→G | G129G (GGT→GGC) | gpp ← | guanosine‑5'‑triphosphate,3'‑diphosphate phosphatase |
| RA | 3,963,849 | G→T | T127T (ACC→ACA) | gpp ← | guanosine‑5'‑triphosphate,3'‑diphosphate phosphatase |
| RA | 3,963,921 | A→G | I103I (ATT→ATC) | gpp ← | guanosine‑5'‑triphosphate,3'‑diphosphate phosphatase |
| RA | 3,963,966 | G→A | R88R (CGC→CGT) | gpp ← | guanosine‑5'‑triphosphate,3'‑diphosphate phosphatase |
| RA | 3,963,972 | C→T | T86T (ACG→ACA) | gpp ← | guanosine‑5'‑triphosphate,3'‑diphosphate phosphatase |
| RA | 3,964,008 | A→G | I74I (ATT→ATC) | gpp ← | guanosine‑5'‑triphosphate,3'‑diphosphate phosphatase |
| RA | 3,964,040 | A→G | L64L (TTG→CTG) | gpp ← | guanosine‑5'‑triphosphate,3'‑diphosphate phosphatase |
| RA | 3,964,071 | G→A | S53S (TCC→TCT) | gpp ← | guanosine‑5'‑triphosphate,3'‑diphosphate phosphatase |
| RA | 3,964,074 | G→C | L52L (CTC→CTG) | gpp ← | guanosine‑5'‑triphosphate,3'‑diphosphate phosphatase |
| RA | 3,964,361 | (T)6→4 | intergenic (‑132/+3) | gpp ← / ← rhlB | guanosine‑5'‑triphosphate,3'‑diphosphate phosphatase/ATP‑dependent RNA helicase RhlB |
| RA | 3,964,422 | G→A | R403R (CGC→CGT) | rhlB ← | ATP‑dependent RNA helicase RhlB |
| RA | 3,964,425 | C→T | P402P (CCG→CCA) | rhlB ← | ATP‑dependent RNA helicase RhlB |
| RA | 3,993,531 | T→C | R793R (CGT→CGC) | cyaA → | adenylate cyclase |
| RA | 3,996,049 | T→A | L156* (TTG→TAG) | yigA → | DUF484 domain‑containing protein YigA |
| RA | 4,011,802 | C→T | P243S (CCG→TCG) | bioP → | biotin transporter |
| RA | 4,031,457 | C→T | F99F (TTC→TTT) | pepQ → | Xaa‑Pro dipeptidase |
| RA | 4,031,511 | C→T | S117S (AGC→AGT) | pepQ → | Xaa‑Pro dipeptidase |
| RA | 4,084,903 | T→G | N307T (AAC→ACC) | fdoG ← | formate dehydrogenase O subunit alpha |
| RA | 4,092,703 | A→G | F41L (TTC→CTC) | frvA ← | putative PTS enzyme IIA component FrvA |
| RA | 4,113,851 | G→A | H208Y (CAT→TAT) | fpr ← | flavodoxin/ferredoxin‑NADP(+) reductase |
| RA | 4,143,377 | C→T | S283L (TCA→TTA) | frwC → | putative PTS enzyme IIC component FrwC |
| RA | 4,161,248 | G→T | G61V (GGC→GTC) | fabR → | DNA‑binding transcriptional repressor FabR |
| RA | 4,164,123 | C→G | A162G (GCA→GGA) | btuB → | cobalamin outer membrane transporter |
| RA | 4,215,347 | T→A | intergenic (+138/‑131) | metA → / → aceB | homoserine O‑succinyltransferase/malate synthase A |
| RA | 4,223,638 | T→C | intergenic (‑10/‑190) | iclR ← / → metH | DNA‑binding transcriptional repressor IclR/cobalamin‑dependent methionine synthase |
| RA | 4,282,332 | (A)5→6 | coding (744/1293 nt) | yjcF ← | pentapeptide repeat‑containing protein YjcF |
| RA | 4,293,781 | 2 bp→AT | coding (239‑240/597 nt) | nrfG → | putative formate‑dependent nitrite reductase complex subunit NrfG |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,325,644 | C→T | S33N (AGC→AAC) | yjdN ← | PF06983 family protein YjdN |
| RA | 4,366,717 | (C)6→5 | coding (57/1302 nt) | dcuA ← | C4‑dicarboxylate transporter DcuA |
| RA | 4,392,997 | G→A | V357V (GTC→GTT) | queG ← | epoxyqueuosine reductase |
| RA | 4,393,552 | G→A | F172F (TTC→TTT) | queG ← | epoxyqueuosine reductase |
| RA | 4,396,373 | C→T | T103T (ACC→ACT) | amiB → | N‑acetylmuramoyl‑L‑alanine amidase B |
| RA | 4,396,772 | T→C | F236F (TTT→TTC) | amiB → | N‑acetylmuramoyl‑L‑alanine amidase B |
| RA | 4,425,688 | C→A | H57N (CAC→AAC) | priB → | primosomal replication protein N |
| RA | 4,425,696 | C→A | N59K (AAC→AAA) | priB → | primosomal replication protein N |
| RA | 4,499,661 | T→C | intergenic (+161/‑1599) | insD6 → / → yjgZ | IS2 insertion element protein InsB/uncharacterized protein YjgZ |
| RA | 4,510,238 | T→G | intergenic (+445/+452) | insO → / ← fecE | IS911B regulator fragment/ferric citrate ABC transporter ATP binding subunit |
| RA | 4,518,627 | 2 bp→AC | coding (101‑102/276 nt) | insA7 → | IS1 family repressor protein InsA |
| RA | 4,532,409 | T→G | intergenic (‑758/+28) | sgcX ← / ← yjhP | putative endoglucanase with Zn‑dependent exopeptidase domain/putative methyltransferase YjhP |
| RA | 4,546,601 | C→T | I502I (ATC→ATT) | fimD → | type I fimbriae usher protein |
| RA | 4,636,925 | G→C | R77P (CGC→CCC) | creC → | sensory histidine kinase CreC |
| RA | 4,638,240 | G→A | L21L (TTG→TTA) | creD → | putative inner membrane protein CreD |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 1196304 | 1211450 | 15147 | 38 [32] | [32] 34 | [icd]–mcrA | [icd],C0293,ymfD,ymfE,lit,intE,xisE,ymfH,ymfI,ymfJ,ymfK,ymfT,ymfL,ymfM,ymfN,ymfR,beeE,ymfQ,ycfK,tfaP,tfaE,pinE,mcrA |
| * | * | ÷ | NC_000913 | 1978495 | 1979270 | 776 | 99 [0] | [0] 103 | insB5–insA5 | insB5,insA5 |
| * | * | ÷ | NC_000913 | 3423765–3424234 | 3424492–3424239 | 6–728 | 34 [33] | [32] 34 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| * | * | ÷ | NC_000913 | 3941856–3942011 | 3943210–3942028 | 18–1355 | 35 [33] | [33] 34 | rrsC | 16S ribosomal RNA |
| * | * | ÷ | NC_000913 | 3943770–3944036 | 3945384–3944061 | 26–1615 | 35 [33] | [32] 37 | rrlC | 23S ribosomal RNA |
| * | * | ÷ | NC_000913 | 4640415 | 4640417 | 3 | 107 [0] | [0] 132 | yjjY | uncharacterized protein YjjY |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1299498 | 2 (0.020) | 154 (1.600) | 89/578 | 0.0 | 99.4% | intergenic (+253/‑69) | ychE/insH21 | MarC family putative inner membrane protein YchE/IS5 family transposase and trans‑activator |
| ? | NC_000913 | 1300698 = | 0 (0.000) | intergenic (+151/‑484) | insH21/oppA | IS5 family transposase and trans‑activator/oligopeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | = 1397238 | NA (NA) | 99 (1.010) | 57/586 | 0.3 | 100% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 1978494 | 0 (0.000) | intergenic (‑297/+24) | flhD/insB5 | DNA‑binding transcriptional dual regulator FlhD/IS1 family protein InsB | |||||
| * | ? | NC_000913 | = 1469241 | NA (NA) | 114 (1.200) +GTACGTAA |
66/570 | 0.1 | NA | intergenic (‑92/‑5) | insC2/ydbA | IS2 insertion element repressor InsA/putative outer membrane protein, N‑terminal fragment |
| ? | NC_000913 | 1469295 = | NA (NA) | pseudogene (50/50 nt) | ydbA | putative outer membrane protein, N‑terminal fragment | |||||
| * | ? | NC_000913 | 1979271 = | 0 (0.000) | 103 (1.060) | 69/586 | 0.1 | 100% | intergenic (‑56/‑482) | insA5/uspC | IS1 family protein InsA/universal stress protein C |
| ? | NC_000913 | = 2102947 | NA (NA) | pseudogene (443/446 nt) | wbbL | interrupted rhamnosyltransferase WbbL | |||||
| * | ? | NC_000913 | = 2171428 | NA (NA) | 81 (0.830) | 53/584 | 0.5 | 81.8% | noncoding (1258/1258 nt) | IS3 | repeat region |
| ? | NC_000913 | 2176471 = | 18 (0.190) | coding (734/855 nt) | gatY | tagatose‑1,6‑bisphosphate aldolase 2 | |||||
| * | ? | NC_000913 | 4498181 = | NA (NA) | 48 (0.490) | 32/586 | 1.8 | NA | noncoding (1/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 4499512 | NA (NA) | intergenic (+12/‑1748) | insD6/yjgZ | IS2 insertion element protein InsB/uncharacterized protein YjgZ | |||||
| * | ? | NC_000913 | = 4499511 | NA (NA) | 107 (1.100) | 62/586 | 0.2 | 100% | noncoding (1331/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 4640414 | 0 (0.000) | coding (13/141 nt) | yjjY | uncharacterized protein YjjY | |||||
| * | ? | NC_000913 | 4507459 = | NA (NA) | 132 (1.360) | 82/584 | 0.0 | 100% | noncoding (1221/1221 nt) | IS30 | repeat region |
| ? | NC_000913 | 4640418 = | 0 (0.000) | coding (17/141 nt) | yjjY | uncharacterized protein YjjY | |||||