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 | 3,446 | T→C | S216P (TCC→CCC) | thrB → | homoserine kinase |
| RA | 39,750 | C→T | D213N (GAC→AAC) | caiA ← | crotonobetainyl‑CoA reductase |
| RA | 148,502 | G→A | I98I (ATC→ATT) | panC ← | pantothenate synthetase |
| RA | 169,785 | A→G | E3G (GAA→GGA) | fhuC → | iron(III) hydroxamate ABC transporter ATP binding subunit |
| RA | 209,247 | G→A | L209L (CTG→CTA) | accA → | acetyl‑CoA carboxyltransferase subunit alpha |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 301,516 | G→A | D124D (GAC→GAT) | paoB ← | aldehyde dehydrogenase, FAD‑binding subunit |
| RA | 320,156 | T→C | intergenic (‑155/‑71) | rclA ← / → rclR | cupric reductase RclA/DNA‑binding transcriptional activator RclR |
| RA | 332,030 | C→T | intergenic (+154/‑341) | yahV → / → pdeL | protein YahV/DNA‑binding transcriptional regulator/c‑di‑GMP phosphodiesterase PdeL |
| RA | 358,005 | T→C | E229G (GAG→GGG) | cynR ← | DNA‑binding transcriptional dual regulator CynR |
| RA | 405,638 | T→C | K3E (AAG→GAG) | proC ← | pyrroline‑5‑carboxylate reductase |
| RA | 474,452 | C→T | R237H (CGC→CAC) | tesB ← | acyl‑CoA thioesterase II |
| RA | 493,485 | C→T | A465V (GCG→GTG) | dnaX → | DNA polymerase III subunit tau |
| RA | 495,201 | A→T | K28* (AAA→TAA) | htpG → | chaperone protein HtpG |
| RA | 495,211 | T→C | F31S (TTC→TCC) | htpG → | chaperone protein HtpG |
| RA | 550,643 | G→A | E69K (GAA→AAA) | ybcF → | putative carbamate kinase |
| RA | 557,635 | A→T | L36Q (CTG→CAG) | folD ← | bifunctional methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase |
| RA | 581,072 | G→A | G80E (GGG→GAG) | nohD → | putative DNA‑packaging protein NohD |
| MC JC | 676,678 | Δ11,173 bp | IS5‑mediated | ybeR–gltI | ybeR, djlB, ybeT, ybeU, djlC, hscC, rihA, gltL, gltK, gltJ, sroC, gltI |
| RA | 699,728 | C→T | G200D (GGC→GAC) | umpH ← | UMP phosphatase |
| RA | 699,843 | C→T | G162R (GGG→AGG) | umpH ← | UMP phosphatase |
| RA | 727,250 | C→T | G495R (GGG→AGG) | kdpA ← | K(+) transporting P‑type ATPase subunit KdpA |
| RA | 736,715 | C→T | intergenic (+16/‑1377) | ybfQ → / → ybfD | inactive transposase YbfQ/H repeat‑associated putative transposase YbfD |
| RA | 737,727 | C→T | intergenic (+1028/‑365) | ybfQ → / → ybfD | inactive transposase YbfQ/H repeat‑associated putative transposase YbfD |
| RA | 748,987 | C→T | A241T (GCG→ACG) | ybgP ← | putative fimbrial chaperone YbgP |
| RA | 749,898 | G→A | R758C (CGC→TGC) | ybgQ ← | putative fimbrial usher protein YbgQ |
| RA | 753,942 | C→A | C176F (TGT→TTT) | gltA ← | citrate synthase |
| RA | 754,042 | C→T | A143T (GCG→ACG) | gltA ← | citrate synthase |
| RA | 798,989 | C→T | S135L (TCA→TTA) | pgl → | 6‑phosphogluconolactonase |
| RA | 817,983 | C→T | H314Y (CAT→TAT) | moaA → | GTP 3',8'‑cyclase |
| RA | 826,476 | C→T | G259G (GGG→GGA) | ybhS ← | ABC exporter membrane subunit YbhS |
| RA | 832,323 | C→T | intergenic (+87/+145) | rhlE → / ← ybiA | ATP‑dependent RNA helicase RhlE/N‑glycosidase YbiA |
| RA | 839,315 | C→T | K739K (AAG→AAA) | fiu ← | iron catecholate outer membrane transporter Fiu |
| RA | 842,254 | G→T | intergenic (‑198/‑78) | mcbA ← / → rlmF | DUF1471 domain‑containing protein McbA/23S rRNA m(6)A1618 methyltransferase |
| RA | 842,367 | C→T | N12N (AAC→AAT) | rlmF → | 23S rRNA m(6)A1618 methyltransferase |
| RA | 848,750 | C→T | M54I (ATG→ATA) | dps ← | DNA protection during starvation protein |
| RA | 848,859 | C→T | R18H (CGC→CAC) | dps ← | DNA protection during starvation protein |
| RA | 857,132 | C→T | D390D (GAC→GAT) | ybiT → | putative ATP‑binding protein YbiT |
| RA | 941,264 | C→T | R102R (CGC→CGT) | dmsA → | dimethyl sulfoxide reductase subunit A |
| RA | 943,457 | C→T | T15I (ACC→ATC) | dmsB → | dimethyl sulfoxide reductase subunit B |
| RA | 946,025 | C→T | T52I (ACC→ATC) | ycaD → | putative transporter YcaD |
| RA | 947,423 | C→T | T65T (ACC→ACT) | ycaM → | putative transporter YcaM |
| RA | 953,214 | C→T | G114D (GGT→GAT) | pflB ← | pyruvate formate‑lyase |
| RA | 954,560 | C→T | intergenic (‑94/+312) | focA ← / ← ycaO | formate channel FocA/ribosomal protein S12 methylthiotransferase accessory factor YcaO |
| RA | 956,501 | C→T | W44* (TGG→TGA) | ycaO ← | ribosomal protein S12 methylthiotransferase accessory factor YcaO |
| RA | 978,478 | C→T | S718L (TCA→TTA) | mukB → | chromosome partitioning protein MukB |
| RA | 984,313 | C→T | intergenic (+16/+206) | gloC → / ← aspC | hydroxyacylglutathione hydrolase GloC/aspartate aminotransferase |
| RA | 987,152 | G→T | intergenic (‑170/+433) | ompF ← / ← asnS | outer membrane porin F/asparagine‑‑tRNA ligase |
| RA | 989,027 | C→T | intergenic (‑42/+127) | asnS ← / ← pncB | asparagine‑‑tRNA ligase/nicotinate phosphoribosyltransferase |
| RA | 1,004,748 | C→T | intergenic (+91/‑20) | ycbF → / → pyrD | putative fimbrial chaperone YcbF/dihydroorotate dehydrogenase, type 2 |
| RA | 1,007,605 | C→T | intergenic (‑5/‑239) | ycbX ← / → rlmL | 6‑N‑hydroxylaminopurine resistance protein/fused 23S rRNA m(2)G2445 methyltransferase and 23S rRNA m(7)G2069 methyltransferase |
| RA | 1,020,516 | G→A | A135V (GCA→GTA) | sulA ← | cell division inhibitor SulA |
| RA | 1,023,189 | C→T | R232Q (CGG→CAG) | yccS ← | putative transporter YccS |
| RA | 1,043,505 | C→T | G236S (GGT→AGT) | etk ← | protein‑tyrosine kinase Etk |
| RA | 1,072,103 | A→G | V19V (GTT→GTC) | rutC ← | 3‑aminoacrylate deaminase |
| RA | 1,102,966 | C→T | R77R (AGG→AGA) | csgD ← | DNA‑binding transcriptional dual regulator CsgD |
| JC JC | 1,105,376 | IS2 (–) +5 bp | intergenic (+83/‑34) | csgC → / → ymdA | curlin chaperone/uncharacterized protein YmdA |
| RA | 1,105,778 | C→T | intergenic (+53/‑42) | ymdA → / → ymdB | uncharacterized protein YmdA/2'‑O‑acetyl‑ADP‑ribose deacetylase, regulator of RNase III activity |
| RA | 1,119,790 | C→T | G266D (GGC→GAC) | solA ← | N‑methyl‑L‑tryptophan oxidase |
| RA | 1,122,356 | C→T | S84S (TCG→TCA) | pyrC ← | dihydroorotase |
| RA | 1,123,620 | C→T | K145K (AAG→AAA) | grxB ← | reduced glutaredoxin 2 |
| RA | 1,133,180 | A→G | T203A (ACC→GCC) | flgE → | flagellar hook protein FlgE |
| RA | 1,136,605 | G→A | G111E (GGA→GAA) | flgI → | flagellar P‑ring protein |
| 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 |
| RA | 1,196,304 | G→A | E394E (GAG→GAA) | icd → | isocitrate dehydrogenase |
| RA | 1,196,316 | T→A | D398E (GAT→GAA) | icd → | isocitrate dehydrogenase |
| MC JC | 1,286,718 | 829 bp→C | [ychS]–[tyrT] | [ychS], rttR, tpr, tyrV, [tyrT] | |
| RA | 1,287,588 | C→G | noncoding (35/85 nt) | tyrT ← | tRNA‑Tyr |
| MC JC | 1,299,499 | Δ1,199 bp | insH21 | insH21 | |
| RA | 1,322,868 | G→A | Q27* (CAG→TAG) | trpE ← | anthranilate synthase subunit TrpE |
| RA | 1,337,394 | A→G | S522G (AGC→GGC) | acnA → | aconitate hydratase 1 |
| RA | 1,345,203 | Δ1 bp | coding (1540/1986 nt) | pdeR ← | cyclic di‑GMP phosphodiesterase PdeR |
| MC JC | 1,382,928 | Δ13,116 bp | IS5‑mediated | ycjW–ynaI | ycjW, ycjX, ycjF, tyrR, tpx, ycjG, mpaA, ymjC, ymjD, ycjY, pgrR, mppA, ynaI |
| RA | 1,472,163 | G→A | pseudogene (1645/3495 nt) | ydbA → | putative outer membrane protein, N‑terminal fragment |
| MC JC | 1,494,303 | Δ11 bp | coding (759‑769/924 nt) | ydcI ← | DNA‑binding transcriptional dual regulator YdcI |
| RA | 1,531,060 | C→T | intergenic (‑556/‑756) | yncO ← / → ydcC | protein YncO/H repeat‑associated putative transposase YdcC |
| RA | 1,540,158 | C→T | A811A (GCG→GCA) | narZ ← | nitrate reductase Z subunit alpha |
| RA | 1,568,501 | A→G | F108S (TTC→TCC) | digH ← | divisome localized glycosyl hydrolase |
| RA | 1,592,212 | C→T | S77S (TCG→TCA) | hipB ← | antitoxin/DNA‑binding transcriptional repressor HipB |
| RA | 1,630,908 | T→C | G2G (GGA→GGG) | ydfI ← | putative oxidoreductase YdfI |
| RA | 1,652,331 | T→C | intergenic (+2346/+397) | ydfD → / ← ynfP | lysis protein/protein YnfP |
| RA | 1,667,887 | Δ1 bp | coding (678/1221 nt) | mlc ← | DNA‑binding transcriptional repressor Mlc |
| RA | 1,670,921 | G→A | G408E (GGG→GAG) | ynfM → | putative transporter YnfM |
| RA | 1,684,504 | G→T | Q82H (CAG→CAT) | tus → | DNA replication terminus site‑binding protein |
| RA | 1,710,681 | G→A | V160M (GTG→ATG) | rsxG → | SoxR [2Fe‑2S] reducing system protein RsxG |
| RA | 1,761,371 | C→A | A141S (GCC→TCC) | sufD ← | Fe‑S cluster scaffold complex subunit SufD |
| RA | 1,857,073 | G→A | L233F (CTC→TTC) | ydjI ← | L‑glycero‑L‑galacto‑octuluronate‑1‑phosphate aldolase |
| RA | 1,889,299 | T→G | T150P (ACC→CCC) | fadD ← | long‑chain‑fatty‑acid‑‑CoA ligase |
| RA | 1,895,329 | G→A | Q175Q (CAG→CAA) | pabB → | aminodeoxychorismate synthase subunit 1 |
| RA | 1,926,213 | C→T | P32S (CCC→TCC) | exoX → | exonuclease X |
| RA | 1,926,324 | C→T | P69S (CCA→TCA) | exoX → | exonuclease X |
| RA | 1,933,994 | C→T | R204H (CGC→CAC) | edd ← | phosphogluconate dehydratase |
| RA | 1,935,118 | C→T | L399L (CTG→CTA) | zwf ← | NADP(+)‑dependent glucose‑6‑phosphate dehydrogenase |
| RA | 1,935,208 | C→T | Q369Q (CAG→CAA) | zwf ← | NADP(+)‑dependent glucose‑6‑phosphate dehydrogenase |
| RA | 1,947,914 | C→T | A80T (GCA→ACA) | yebC ← | putative transcriptional regulator YebC |
| RA | 1,960,121 | G→A | A20A (GCG→GCA) | argS → | arginine‑‑tRNA ligase |
| RA | 1,969,375 | C→A | intergenic (‑11/+8) | cheR ← / ← tap | chemotaxis protein methyltransferase/methyl‑accepting chemotaxis protein Tap |
| RA | 1,977,962 | G→A | T79M (ACG→ATG) | flhD ← | DNA‑binding transcriptional dual regulator FlhD |
| RA | 2,010,920 | C→T | R107R (CGC→CGT) | yedL → | putative acetyltransferase YedL |
| RA | 2,011,389 | A→G | intergenic (+310/+1311) | yedL → / ← fliE | putative acetyltransferase YedL/flagellar protein FliE |
| RA | 2,032,423 | G→A | V219V (GTC→GTT) | yedJ ← | putative HD superfamily phosphohydrolase YedJ |
| MC JC | 2,102,944 | Δ39,454 bp | IS5‑mediated | [wbbL]–[udk] | 36 genes [wbbL], wbbK, wbbJ, wbbI, wbbH, glf, rfbX, rfbC, rfbA, rfbD, rfbB, galF, wcaM, wcaL, wcaK, wzxC, wcaJ, cpsG, cpsB, wcaI, gmm, fcl, gmd, wcaF, wcaE, wcaD, wcaC, wcaB, wcaA, wzc, wzb, wza, yegH, asmA, dcd, [udk] |
| RA | 2,160,741 | C→T | P786S (CCG→TCG) | mdtC → | multidrug efflux pump RND permease subunit MdtC |
| RA | 2,173,363 | Δ2 bp | intergenic (‑490/+918) | gatD ← / ← gatB | galactitol‑1‑phosphate 5‑dehydrogenase/galactitol‑specific PTS enzyme IIB component |
| RA | 2,191,105 | C→T | D181N (GAC→AAC) | yehC ← | putative fimbrial chaperone YehC |
| RA | 2,202,345 | T→A | D689E (GAT→GAA) | yehI → | DUF4132 domain‑containing protein YehI |
| RA | 2,247,103 | C→T | R477H (CGC→CAC) | lysP ← | lysine:H(+) symporter |
| RA | 2,250,944 | C→T | N35N (AAC→AAT) | nfo → | endonuclease IV |
| RA | 2,280,839 | C→T | Q70* (CAG→TAG) | radD → | putative DNA repair helicase RadD |
| RA | 2,325,793 | C→T | T346T (ACC→ACT) | atoE → | short chain fatty acid transporter |
| RA | 2,351,449 | C→T | C309Y (TGC→TAC) | glpT ← | sn‑glycerol 3‑phosphate:phosphate antiporter |
| RA | 2,388,299 | T→C | Q43R (CAA→CGA) | yfbN ← | uncharacterized protein YfbN |
| JC JC | 2,406,780 | IS1 (–) +8 bp | intergenic (‑139/‑774) | lrhA ← / → alaA | DNA‑binding transcriptional dual regulator LrhA/glutamate‑‑pyruvate aminotransferase AlaA |
| RA | 2,420,652 | 2 bp→TG | coding (32‑33/648 nt) | yfcG → | disulfide bond oxidoreductase YfcG |
| RA | 2,430,737 | G→A | I9I (ATC→ATT) | cvpA ← | colicin V production protein |
| RA | 2,537,509 | G→A | A56A (GCG→GCA) | yfeK → | DUF5329 domain‑containing protein YfeK |
| RA | 2,577,284 | G→A | S365L (TCA→TTA) | maeB ← | malate dehydrogenase (oxaloacetate‑decarboxylating) (NADP(+)) |
| RA | 2,666,080 | T→C | S216P (TCC→CCC) | csiE → | stationary phase‑inducible protein CsiE |
| RA | 2,680,564 | G→A | P728S (CCG→TCG) | yphG ← | DUF5107 domain‑containing protein YphG |
| RA | 2,704,184 | C→T | intergenic (‑121/+151) | rnc ← / ← lepB | RNase III/signal peptidase I |
| RA | 2,739,388 | C→A | E228* (GAG→TAG) | tyrA ← | fused chorismate mutase/prephenate dehydrogenase |
| RA | 2,742,238 | G→A | E122K (GAA→AAA) | yfiR → | DUF4154 domain‑containing protein YfiR |
| RA | 2,773,749 | G→A | M144I (ATG→ATA) | yfjW → | uncharacterized protein YfjW |
| RA | 2,789,030 | C→T | Q16* (CAG→TAG) | glaH → | glutarate dioxygenase GlaH |
| RA | 2,864,262 | C→T | S9S (TCC→TCT) | ygbM → | putative 2‑oxo‑tetronate isomerase YgbM |
| RA | 2,867,455 | G→A | Q33* (CAG→TAG) | rpoS ← | RNA polymerase sigma factor RpoS |
| RA | 2,870,068 | G→A | T69T (ACC→ACT) | umpG ← | broad specificity 5'(3')‑nucleotidase and polyphosphatase |
| RA | 2,900,293 | 2 bp→CT | intergenic (‑20/‑298) | ygcW ← / → yqcE | putative deoxygluconate dehydrogenase/putative transport protein YqcE |
| RA | 2,964,704 | T→A | Q151L (CAG→CTG) | thyA ← | thymidylate synthase |
| RA | 2,966,382 | C→T | G685R (GGG→AGG) | ptsP ← | phosphoenolpyruvate‑protein phosphotransferase PtsP |
| RA | 3,028,801 | G→A | A71V (GCG→GTG) | ygfS ← | putative electron transport protein YgfS |
| MC JC | 3,102,359 | Δ27,786 bp | IS5‑mediated | [trmB]–[yghO] | 24 genes [trmB], mutY, yggX, mltC, nupG, speC, yqgH, yqgA, pheV, yghD, yghE, yqhJ, yghF, yghG, pppA, yghJ, glcA, glcB, glcG, glcF, glcE, glcD, glcC, [yghO] |
| RA | 3,156,738 | A→T | E39V (GAA→GTA) | dkgA → | methylglyoxal reductase DkgA |
| RA | 3,160,398 | G→A | P250L (CCA→CTA) | ygiQ ← | radical SAM superfamily protein YgiQ |
| RA | 3,164,489 | C→T | L495L (CTG→CTA) | parC ← | DNA topoisomerase IV subunit A |
| RA | 3,166,817 | G→A | P301L (CCG→CTG) | ygiS ← | putative deoxycholate binding periplasmic protein |
| RA | 3,249,171 | C→T | A68V (GCC→GTC) | yqjC → | DUF1090 domain‑containing protein YqjC |
| RA | 3,351,722 | A→T | V435E (GTG→GAG) | arcB ← | sensor histidine kinase ArcB |
| RA | 3,373,610 | G→A | intergenic (‑34/+88) | nanA ← / ← nanR | N‑acetylneuraminate lyase/NanR |
| RA | 3,408,916 | C→T | A437V (GCC→GTC) | panF → | pantothenate:Na(+) symporter |
| RA | 3,447,645 | C→T | L41L (CTG→CTA) | rplX ← | 50S ribosomal subunit protein L24 |
| RA | 3,486,205 | C→A | T29K (ACG→AAG) | crp → | DNA‑binding transcriptional dual regulator CRP |
| RA | 3,504,190 | G→T | V47F (GTC→TTC) | frlR → | DNA‑binding transcriptional regulator FrlR |
| RA | 3,522,464 | C→T | R96R (CGG→CGA) | hofM ← | DNA utilization protein HofM |
| RA | 3,526,069 | C→T | V27V (GTG→GTA) | nudE ← | ADP‑sugar diphosphatase NudE |
| RA | 3,531,473 | C→T | A323T (GCG→ACG) | yhgE ← | putative transport protein YhgE |
| RA | 3,535,996 | T→C | M197V (ATG→GTG) | ompR ← | DNA‑binding transcriptional dual regulator OmpR |
| RA | 3,548,980 | C→T | G364D (GGC→GAC) | malQ ← | 4‑alpha‑glucanotransferase |
| RA | 3,560,455 | +G | intergenic (+589/+167) | rtcR → / ← glpG | DNA‑binding transcriptional activator RtcR/rhomboid protease GlpG |
| RA | 3,560,860 | C→T | G198D (GGC→GAC) | glpG ← | rhomboid protease GlpG |
| RA | 3,562,463 | C→T | L151L (CTG→TTG) | glpD → | aerobic glycerol 3‑phosphate dehydrogenase |
| RA | 3,566,305 | C→T | G93R (GGA→AGA) | glgP ← | glycogen phosphorylase |
| RA | 3,590,729 | C→T | T61T (ACG→ACA) | ugpA ← | sn‑glycerol 3‑phosphate ABC transporter membrane subunit UgpA |
| RA | 3,629,131 | C→T | G136G (GGG→GGA) | rbbA ← | ribosome‑associated ATPase |
| RA | 3,632,121 | C→T | W157* (TGG→TAG) | yhiJ ← | DUF4049 domain‑containing protein YhiJ |
| RA | 3,633,986 | C→T | intergenic (‑1396/‑855) | yhiJ ← / → yhiM | DUF4049 domain‑containing protein YhiJ/inner membrane protein YhiM |
| RA | 3,664,883 | C→T | noncoding (20/106 nt) | gadY → | small regulatory RNA GadY |
| RA | 3,664,986 | C→T | *275* (TAG→TAA) | gadX ← | DNA‑binding transcriptional dual regulator GadX |
| RA | 3,674,975 | C→T | L64L (CTA→TTA) | yhjE → | putative transporter YhjE |
| RA | 3,676,176 | A→G | intergenic (+68/+114) | yhjE → / ← yhjG | putative transporter YhjE/AsmA family protein YhjG |
| MC JC | 3,682,261 | Δ34 bp | coding (1154‑1187/1287 nt) | dctA ← | C4 dicarboxylate/orotate:H(+) symporter |
| RA | 3,689,865 | T→C | K133E (AAA→GAA) | bcsZ ← | endo‑1,4‑D‑glucanase |
| RA | 3,715,750 | C→T | G215G (GGG→GGA) | bisC ← | biotin sulfoxide reductase |
| RA | 3,718,452 | C→T | G198D (GGC→GAC) | yiaF ← | DUF3053 domain‑containing protein YiaF |
| RA | 3,720,845 | C→T | P56S (CCC→TCC) | insJ → | insertion element IS150 protein InsA |
| RA | 3,726,824 | C→T | A313V (GCG→GTG) | wecH → | O‑acetyltransferase WecH |
| JC JC | 3,737,137 | IS2 (+) +5 bp | coding (37‑41/825 nt) | bax ← | putative glycoside hydrolase Bax |
| RA | 3,749,637 | C→T | L136L (CTG→TTG) | sgbU → | putative L‑xylulose 5‑phosphate 3‑epimerase |
| RA | 3,749,983 | C→T | S251F (TCT→TTT) | sgbU → | putative L‑xylulose 5‑phosphate 3‑epimerase |
| RA | 3,758,589 | C→T | D425N (GAC→AAC) | selB ← | selenocysteyl‑tRNA‑specific translation elongation factor |
| RA | 3,777,211 | C→T | intergenic (+184/‑188) | yibL → / → lldP | DUF2810 domain‑containing protein YibL/lactate/glycolate:H(+) symporter LldP |
| RA | 3,782,634 | C→T | intergenic (‑72/+8) | cysE ← / ← gpsA | serine acetyltransferase/glycerol‑3‑phosphate dehydrogenase |
| RA | 3,789,826 | C→T | G86S (GGC→AGC) | waaH ← | UDP‑glucuronate:LPS(HepIII) glycosyltransferase |
| RA | 3,790,354 | C→T | G331D (GGC→GAC) | tdh ← | threonine dehydrogenase |
| RA | 3,799,201 | C→T | A38T (GCA→ACA) | waaU ← | putative ADP‑heptose:LPS heptosyltransferase 4 |
| RA | 3,872,404 | C→T | E199K (GAA→AAA) | dgoD ← | D‑galactonate dehydratase |
| RA | 3,895,844 | C→T | V256M (GTG→ATG) | adeP ← | adenine:H(+) symporter |
| RA | 3,900,993 | C→T | D410N (GAT→AAT) | bglH ← | carbohydrate‑specific outer membrane porin, cryptic |
| RA | 3,905,833 | T→C | E245E (GAA→GAG) | bglG ← | transcriptional antiterminator BglG |
| RA | 3,906,571 | A→G | intergenic (‑4/+282) | bglG ← / ← phoU | transcriptional antiterminator BglG/negative regulator of the pho regulon |
| RA | 3,923,107 | C→T | A192T (GCC→ACC) | rsmG ← | 16S rRNA m(7)G527 methyltransferase |
| RA | 3,948,736 | C→T | A412T (GCC→ACC) | yifB ← | putative magnesium chelatase YifB |
| RA | 3,954,084 | T→C | S203P (TCA→CCA) | ilvD → | dihydroxy‑acid dehydratase |
| RA | 3,958,138 | C→T | R57C (CGT→TGT) | ilvC → | ketol‑acid reductoisomerase (NADP(+)) |
| RA | 3,964,147 | C→T | G28E (GGA→GAA) | gpp ← | guanosine‑5'‑triphosphate,3'‑diphosphate phosphatase |
| RA | 3,972,070 | C→T | P271S (CCG→TCG) | wecC → | UDP‑N‑acetyl‑D‑mannosamine dehydrogenase |
| RA | 3,974,173 | C→T | P189L (CCG→CTG) | rffH → | glucose‑1‑phosphate thymidylyltransferase 2 |
| RA | 4,001,322 | T→A | intergenic (+48/‑104) | ysgD → / → corA | protein YsgD/Ni(2(+))/Co(2(+))/Mg(2(+)) transporter |
| JC JC | 4,002,526 | IS5 (–) +4 bp | coding (271‑274/381 nt) | yigF ← | DUF2628 domain‑containing protein YigF |
| RA | 4,009,698 | G→A | A177T (GCA→ACA) | pldB → | lysophospholipase L2 |
| RA | 4,012,448 | T→C | K123K (AAA→AAG) | metR ← | DNA‑binding transcriptional dual regulator MetR |
| RA | 4,012,454 | Δ1 bp | coding (363/954 nt) | metR ← | DNA‑binding transcriptional dual regulator MetR |
| RA | 4,026,734 | Δ1 bp | coding (208/702 nt) | fre → | NAD(P)H‑flavin reductase |
| RA | 4,045,543 | C→T | R449C (CGT→TGT) | yihF → | DUF945 domain‑containing protein YihF |
| RA | 4,057,040 | A→G | M332T (ATG→ACG) | glnA ← | glutamine synthetase |
| RA | 4,067,781 | C→T | G499D (GGC→GAC) | yihQ ← | sulfoquinovosidase |
| RA | 4,086,536 | C→T | A174V (GCC→GTC) | fdhD → | sulfurtransferase for molybdenum cofactor sulfuration |
| RA | 4,093,609 | C→T | D222N (GAT→AAT) | rhaD ← | rhamnulose‑1‑phosphate aldolase |
| RA | 4,094,498 | C→T | intergenic (‑226/+225) | rhaD ← / ← rhaA | rhamnulose‑1‑phosphate aldolase/L‑rhamnose isomerase |
| RA | 4,096,858 | C→T | L197L (CTG→CTA) | rhaB ← | rhamnulokinase |
| JC JC | 4,123,923 | IS2 (–) +5 bp | coding (530‑534/1026 nt) | cytR ← | DNA‑binding transcriptional repressor CytR |
| RA | 4,152,733 | G→A | I122I (ATC→ATT) | ppc ← | phosphoenolpyruvate carboxylase |
| RA | 4,166,486 | C→T | intergenic (+201/‑173) | murI → / → rrsB | glutamate racemase/16S ribosomal RNA |
| RA | 4,185,812 | G→A | E155K (GAA→AAA) | rpoC → | RNA polymerase subunit beta' |
| RA | 4,221,743 | G→A | R249W (CGG→TGG) | arpA ← | regulator of acetyl CoA synthetase |
| RA | 4,222,690 | G→A | intergenic (‑203/+114) | arpA ← / ← iclR | regulator of acetyl CoA synthetase/DNA‑binding transcriptional repressor IclR |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,317,811 | G→A | L29F (CTC→TTC) | phnL ← | methylphosphonate degradation complex subunit PhnL |
| RA | 4,360,480 | G→A | T485T (ACC→ACT) | cadC ← | DNA‑binding transcriptional activator CadC |
| RA | 4,372,088 | A→G | E355G (GAA→GGA) | groL → | chaperonin GroEL |
| RA | 4,423,020 | G→A | A59T (GCG→ACG) | ulaE → | L‑ribulose‑5‑phosphate 3‑epimerase UlaE |
| RA | 4,561,138 | T→C | F70S (TTT→TCT) | kptA → | RNA 2'‑phosphotransferase |
| RA | 4,620,534 | A→T | H311L (CAC→CTC) | deoB → | phosphopentomutase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 1196325 | 1211422 | 15098 | 19 [15] | [12] 17 | [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 | 87 [0] | [0] 112 | insB5–insA5 | insB5,insA5 |
| * | * | ÷ | NC_000913 | 3423919–3424234 | 3424389–3424238 | 5–471 | 17 [13] | [16] 17 | rrlD | 23S ribosomal RNA |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 381260 = | NA (NA) | 52 (0.560) | 43/598 | 0.8 | NA | noncoding (1/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 382183 | NA (NA) | noncoding (924/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 382179 = | NA (NA) | 23 (0.250) | 22/594 | 2.3 | NA | noncoding (920/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 382590 | NA (NA) | noncoding (1331/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 1397238 | NA (NA) | 87 (0.940) | 61/598 | 0.2 | 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 | 1979271 = | 0 (0.000) | 112 (1.210) | 77/598 | 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 | = 2102943 | NA (NA) | 48 (0.520) | 36/598 | 1.1 | 34.3% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 2256027 = | 92 (0.990) | intergenic (+13/+58) | yeiL/psuT | DNA‑binding transcriptional activator YeiL/putative pseudouridine transporter | |||||