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 |
| JC JC | 57,276 | IS2 (+) +5 bp | intergenic (‑167/‑84) | lptD ← / → djlA | lipopolysaccharide assembly protein LptD/co‑chaperone protein DjlA |
| RA | 71,134 | G→A | G250S (GGT→AGT) | araC → | DNA‑binding transcriptional dual regulator AraC |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 383,203 | A→G | W245R (TGG→CGG) | yaiP ← | putative glucosyltransferase |
| RA | 434,848 | G→A | A68T (GCT→ACT) | ribE → | 6,7‑dimethyl‑8‑ribityllumazine synthase |
| RA | 442,290 | G→A | V248I (GTC→ATC) | thiI → | tRNA uridine 4‑sulfurtransferase |
| RA | 446,036 | C→T | E211K (GAA→AAA) | yajR ← | putative transport protein YajR |
| RA | 448,621 | G→A | H14Y (CAC→TAC) | cyoC ← | cytochrome bo3 subunit 3 |
| RA | 452,197 | G→A | A450V (GCG→GTG) | ampG ← | muropeptide:H(+) symporter |
| RA | 454,918 | G→A | intergenic (+129/‑215) | bolA → / → tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| RA | 460,678 | G→A | Q597Q (CAG→CAA) | lon → | Lon protease |
| RA | 463,581 | G→A | S556N (AGC→AAC) | ppiD → | periplasmic folding chaperone |
| RA | 464,699 | G→A | A100T (GCG→ACG) | fadM → | long‑chain acyl‑CoA thioesterase FadM |
| RA | 464,872 | G→A | Q226* (CAG→TAG) | queC ← | 7‑cyano‑7‑deazaguanine synthase |
| RA | 469,384 | G→A | A172T (GCG→ACG) | mdlA → | ABC transporter family protein MdlA |
| RA | 469,435 | G→A | A189T (GCA→ACA) | mdlA → | ABC transporter family protein MdlA |
| RA | 474,597 | G→A | P189S (CCG→TCG) | tesB ← | acyl‑CoA thioesterase II |
| RA | 477,894 | G→A | Q242* (CAA→TAA) | pdeB ← | c‑di‑GMP phosphodiesterase PdeB |
| RA | 481,484 | G→A | P974S (CCG→TCG) | acrB ← | multidrug efflux pump RND permease AcrB |
| RA | 485,018 | G→A | T201I (ACT→ATT) | acrA ← | multidrug efflux pump membrane fusion lipoprotein AcrA |
| RA | 488,839 | G→A | E768E (GAG→GAA) | mscK → | potassium dependent, small conductance mechanosensitive channel |
| RA | 492,872 | G→A | G261S (GGC→AGC) G261S (GGC→AGC) |
dnaX → dnaX → |
DNA polymerase III subunit tau DNA polymerase III subunit tau |
| RA | 495,221 | G→A | E34E (GAG→GAA) | htpG → | chaperone protein HtpG |
| RA | 500,604 | G→A | G160G (GGG→GGA) | gsk → | inosine/guanosine kinase |
| RA | 501,813 | G→A | L476L (CTG→TTG) | ybaL ← | putative transporter YbaL |
| RA | 503,911 | G→A | I262I (ATC→ATT) | fsr ← | fosmidomycin efflux pump |
| RA | 518,281 | G→A | intergenic (‑2/+59) | cnoX ← / ← ybbO | chaperedoxin/NADP(+)‑dependent aldehyde reductase YbbO |
| RA | 531,251 | C→T | intergenic (‑25/+44) | selU ← / ← allS | tRNA 2‑selenouridine synthase/DNA‑binding transcriptional activator AllS |
| RA | 536,970 | G→A | G129R (GGG→AGG) | glxR → | tartronate semialdehyde reductase 2 |
| RA | 557,635 | A→T | L36Q (CTG→CAG) | folD ← | bifunctional methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase |
| JC JC | 568,449 | IS2 (–) +5 bp | coding (135‑139/333 nt) | emrE → | multidrug/betaine/choline efflux transporter EmrE |
| RA | 615,913 | G→A | S586N (AGT→AAT) | entF → | apo‑serine activating enzyme |
| RA | 617,063 | G→A | G969G (GGG→GGA) | entF → | apo‑serine activating enzyme |
| RA | 618,034 | G→A | R1293K (AGG→AAG) | entF → | apo‑serine activating enzyme |
| RA | 620,518 | G→A | A224V (GCG→GTG) | fepG ← | ferric enterobactin ABC transporter membrane subunit FepG |
| RA | 628,164 | T→C | C157C (TGT→TGC) | entB → | enterobactin synthase component B |
| RA | 628,713 | G→A | D55N (GAC→AAC) | entA → | 2,3‑dihydro‑2,3‑dihydroxybenzoate dehydrogenase |
| RA | 631,633 | G→A | W580* (TGG→TGA) | cstA → | pyruvate transporter CstA |
| RA | 636,492 | G→A | T26T (ACC→ACT) | ybdN ← | putative PAPS reductase/DUF3440 domain‑containing protein YbdN |
| RA | 640,256 | G→A | V168V (GTG→GTA) | ahpF → | alkyl hydroperoxide reductase, AhpF component |
| RA | 646,502 | G→A | P27S (CCC→TCC) | citT ← | citrate:succinate antiporter |
| RA | 650,230 | G→A | N87N (AAC→AAT) | citE ← | citrate lyase beta subunit |
| RA | 661,069 | G→A | L104F (CTT→TTT) | ybeF ← | putative DNA‑binding transcriptional regulator YbeF |
| RA | 663,759 | G→A | R69C (CGC→TGC) | dacA ← | D‑alanyl‑D‑alanine carboxypeptidase DacA |
| RA | 664,542 | G→A | L217F (CTT→TTT) | rlpA ← | rare lipoprotein RlpA |
| RA | 664,907 | G→A | T95M (ACG→ATG) | rlpA ← | rare lipoprotein RlpA |
| RA | 670,395 | G→A | L60F (CTT→TTT) | nadD ← | nicotinate‑nucleotide adenylyltransferase |
| RA | 675,064 | G→A | S16N (AGC→AAC) | ybeL → | DUF1451 domain‑containing protein YbeL |
| RA | 677,674 | G→A | R87H (CGT→CAT) | djlB → | J domain‑containing protein DjlB |
| RA | 690,238 | G→A | T215I (ACC→ATC) | lnt ← | apolipoprotein N‑acyltransferase |
| RA | 694,176 | G→A | S260S (AGC→AGT) | miaB ← | isopentenyl‑adenosine A37 tRNA methylthiolase |
| RA | 702,720 | G→A | T11I (ACC→ATC) | nagA ← | N‑acetylglucosamine‑6‑phosphate deacetylase |
| RA | 703,258 | G→A | C118C (TGC→TGT) | nagB ← | glucosamine‑6‑phosphate deaminase |
| RA | 705,375 | G→A | A478T (GCA→ACA) | nagE → | N‑acetylglucosamine‑specific PTS enzyme IIABC component |
| RA | 705,414 | G→A | A491T (GCT→ACT) | nagE → | N‑acetylglucosamine‑specific PTS enzyme IIABC component |
| RA | 711,853 | G→A | H16Y (CAC→TAC) | ybfE ← | ribbon‑helix‑helix domain‑containing protein YbfE |
| RA | 715,516 | G→A | W35* (TGG→TGA) | ybfP → | lipoprotein YbfP |
| RA | 740,865 | G→A | E453E (GAG→GAA) | phr → | deoxyribodipyrimidine photolyase |
| RA | 769,601 | G→A | V542I (GTA→ATA) | mngB → | alpha‑mannosidase |
| RA | 770,032 | G→A | G685G (GGG→GGA) | mngB → | alpha‑mannosidase |
| RA | 775,011 | G→A | G87D (GGC→GAC) | ybgC → | esterase/thioesterase |
| RA | 776,164 | G→A | V106I (GTC→ATC) | tolR → | Tol‑Pal system protein TolR |
| RA | 776,311 | G→A | intergenic (+34/‑31) | tolR → / → tolA | Tol‑Pal system protein TolR/Tol‑Pal system protein TolA |
| RA | 808,428 | G→A | T277I (ACC→ATC) | bioA ← | adenosylmethionine‑8‑amino‑7‑oxononanoate aminotransferase |
| RA | 808,808 | G→A | G150G (GGC→GGT) | bioA ← | adenosylmethionine‑8‑amino‑7‑oxononanoate aminotransferase |
| RA | 811,134 | G→A | A252T (GCG→ACG) | bioF → | 8‑amino‑7‑oxononanoate synthase |
| RA | 817,484 | G→A | G147G (GGG→GGA) | moaA → | GTP 3',8'‑cyclase |
| RA | 821,009 | G→A | D73N (GAT→AAT) | ybhM → | Bax1‑I family protein YbhM |
| RA | 826,038 | G→A | A24V (GCG→GTG) | ybhR ← | ABC exporter membrane subunit YbhR |
| RA | 832,937 | G→A | A5V (GCA→GTA) | ybiA ← | N‑glycosidase YbiA |
| RA | 833,336 | G→A | Q89Q (CAG→CAA) | dinG → | ATP‑dependent DNA helicase DinG |
| RA | 834,278 | G→A | W403* (TGG→TGA) | dinG → | ATP‑dependent DNA helicase DinG |
| RA | 854,523 | G→A | V293M (GTG→ATG) | ybiR → | putative transporter YbiR |
| RA | 856,923 | G→A | E321K (GAA→AAA) | ybiT → | putative ATP‑binding protein YbiT |
| RA | 857,458 | G→A | S499N (AGC→AAC) | ybiT → | putative ATP‑binding protein YbiT |
| RA | 858,892 | C→T | G57D (GGC→GAC) | ybiU ← | DUF1479 domain‑containing protein YbiU |
| RA | 860,260 | G→A | R783C (CGT→TGT) | ybiW ← | putative pyruvate formate lyase |
| RA | 865,295 | G→A | A357V (GCC→GTC) | moeA ← | molybdopterin molybdotransferase |
| RA | 871,607 | G→A | S214N (AGC→AAC) | gsiC → | glutathione ABC transporter membrane subunit GsiC |
| RA | 884,298 | G→A | G209D (GGT→GAT) | mdfA → | multidrug efflux pump MdfA/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| RA | 895,123 | G→A | G45S (GGT→AGT) | potG → | putrescine ABC transporter ATP binding subunit |
| RA | 896,177 | G→A | G15E (GGA→GAA) | potH → | putrescine ABC transporter membrane subunit PotH |
| RA | 910,295 | C→T | G252E (GGG→GAG) | poxB ← | pyruvate oxidase |
| RA | 911,117 | G→A | intergenic (‑68/+65) | poxB ← / ← hcr | pyruvate oxidase/NADH oxidoreductase |
| RA | 918,891 | G→A | S77F (TCC→TTC) | ybjX ← | DUF535 domain‑containing protein YbjX |
| RA | 924,859 | T→C | R532R (CGT→CGC) | clpA → | ATP‑dependent Clp protease ATP‑binding subunit ClpA |
| RA | 930,390 | G→A | N191N (AAC→AAT) | cydD ← | glutathione/L‑cysteine ABC exporter subunit CydD |
| RA | 935,214 | G→A | G664D (GGC→GAC) | ftsK → | cell division DNA translocase FtsK |
| RA | 946,875 | G→A | L335L (CTG→CTA) | ycaD → | putative transporter YcaD |
| RA | 957,294 | G→A | S178N (AGT→AAT) | ycaP → | DUF421 domain‑containing protein YcaP |
| RA | 969,254 | G→A | E297K (GAA→AAA) | lpxK → | tetraacyldisaccharide 4'‑kinase |
| RA | 975,438 | G→A | V374M (GTG→ATG) | mukF → | chromosome partitioning protein MukF |
| RA | 976,458 | G→A | A45T (GCG→ACG) | mukB → | chromosome partitioning protein MukB |
| RA | 981,576 | G→A | S177N (AGC→AAC) | ldtD → | L,D‑transpeptidase LdtD |
| RA | 987,152 | G→T | intergenic (‑170/+433) | ompF ← / ← asnS | outer membrane porin F/asparagine‑‑tRNA ligase |
| RA | 988,841 | G→A | P49S (CCT→TCT) | asnS ← | asparagine‑‑tRNA ligase |
| RA | 996,646 | T→C | Y100C (TAC→TGC) | ssuA ← | aliphatic sulfonate ABC transporter periplasmic binding protein |
| RA | 1,001,272 | G→A | G686D (GGC→GAC) | elfC → | putative fimbrial usher protein ElfC |
| RA | 1,001,463 | G→A | A750T (GCG→ACG) | elfC → | putative fimbrial usher protein ElfC |
| RA | 1,013,246 | G→A | E416K (GAG→AAG) | pqiA → | intermembrane transport protein PqiA |
| RA | 1,015,156 | G→A | L87L (TTG→TTA) | pqiC → | intermembrane transport lipoprotein PqiC |
| RA | 1,016,983 | G→A | A439A (GCC→GCT) | ycbZ ← | putative ATP‑dependent protease YcbZ |
| RA | 1,019,827 | T→C | Y76C (TAC→TGC) | ompA ← | outer membrane protein A |
| RA | 1,026,673 | G→A | P115S (CCG→TCG) | mgsA ← | methylglyoxal synthase |
| RA | 1,036,834 | G→A | C29Y (TGT→TAT) | hyaF → | protein HyaF |
| RA | 1,054,126 | G→A | L685L (CTG→TTG) | torS ← | sensor histidine kinase TorS |
| RA | 1,056,263 | G→A | M1M (ATG→ATA) † | torT → | periplasmic trimethylamine‑N‑oxide binding protein |
| RA | 1,069,858 | G→A | intergenic (‑19/+2) | rutG ← / ← rutF | pyrimidine:H(+) symporter/FMN reductase RutF |
| RA | 1,079,999 | G→A | G232D (GGT→GAT) | putP → | proline:Na(+) symporter |
| RA | 1,085,802 | G→A | V271I (GTC→ATC) | phoH → | ATP‑binding protein PhoH |
| RA | 1,095,879 | G→A | D13N (GAT→AAT) | ycdU → | uncharacterized protein YcdU |
| RA | 1,099,700 | G→A | D21N (GAT→AAT) | ycdY → | chaperone protein YcdY |
| RA | 1,105,328 | G→A | intergenic (+35/‑86) | csgC → / → ymdA | curlin chaperone/uncharacterized protein YmdA |
| JC JC | 1,105,376 | IS2 (–) +5 bp | intergenic (+83/‑34) | csgC → / → ymdA | curlin chaperone/uncharacterized protein YmdA |
| RA | 1,111,994 | G→A | A378T (GCG→ACG) | opgH → | osmoregulated periplasmic glucans biosynthesis protein H |
| RA | 1,119,585 | G→A | G334G (GGC→GGT) | solA ← | N‑methyl‑L‑tryptophan oxidase |
| RA | 1,120,661 | G→A | intergenic (‑75/+40) | solA ← / ← bssS | N‑methyl‑L‑tryptophan oxidase/regulator of biofilm formation |
| RA | 1,122,452 | G→A | T52T (ACC→ACT) | pyrC ← | dihydroorotase |
| RA | 1,124,889 | G→A | A146A (GCC→GCT) | mdtH ← | multidrug efflux pump MdtH |
| RA | 1,126,492 | G→A | Q112Q (CAG→CAA) | yceH → | DUF480 domain‑containing protein YceH |
| RA | 1,151,298 | G→A | G210D (GGC→GAC) | fabG → | 3‑oxoacyl‑[acyl‑carrier‑protein] reductase FabG |
| RA | 1,169,127 | G→A | A19T (GCC→ACC) | bhsA → | DUF1471 domain‑containing multiple stress resistance outer membrane protein BhsA |
| RA | 1,175,952 | G→A | G176R (GGG→AGG) | lolC → | lipoprotein release complex ‑ inner membrane subunit |
| RA | 1,193,350 | G→A | L142L (CTG→TTG) | mnmA ← | tRNA‑specific 2‑thiouridylase |
| 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 |
| RA | 1,196,325 | A→G | K401K (AAA→AAG) | icd → | isocitrate dehydrogenase |
| RA | 1,212,851 | G→A | S86F (TCT→TTT) | ycgX ← | DUF1398 domain‑containing protein YcgX |
| RA | 1,214,646 | G→A | T277I (ACT→ATT) | bluF ← | blue light‑ and temperature‑regulated antirepressor BluF |
| RA | 1,223,271 | G→A | R3K (AGA→AAA) | ymgJ → | uncharacterized protein YmgJ |
| RA | 1,253,655 | G→A | A766A (GCC→GCT) | ycgV ← | putative autotransporter adhesin YcgV |
| RA | 1,290,881 | C→T | L214F (CTT→TTT) | rssB → | regulator of RpoS |
| MC JC | 1,294,035 | Δ141 bp | [tdk] | [tdk] | |
| MC JC | 1,299,499 | Δ1,199 bp | insH21 | insH21 | |
| MC JC | 1,303,073 | Δ12 bp | coding (175‑186/921 nt) | oppB → | murein tripeptide ABC transporter/oligopeptide ABC transporter inner membrane subunit OppB |
| RA | 1,310,045 | G→A | V75V (GTC→GTT) | kch ← | K(+) channel Kch |
| RA | 1,337,394 | A→G | S522G (AGC→GGC) | acnA → | aconitate hydratase 1 |
| RA | 1,353,758 | T→A | D254V (GAT→GTT) | sapC ← | putrescine ABC exporter membrane protein SapC |
| RA | 1,401,887 | C→T | E457K (GAG→AAG) | abgB ← | p‑aminobenzoyl‑glutamate hydrolase subunit B |
| RA | 1,403,108 | C→T | A50T (GCA→ACA) | abgB ← | p‑aminobenzoyl‑glutamate hydrolase subunit B |
| RA | 1,404,682 | C→T | intergenic (‑117/‑59) | abgA ← / → abgR | p‑aminobenzoyl‑glutamate hydrolase subunit A/putative LysR‑type DNA‑binding transcriptional regulator AbgR |
| RA | 1,410,605 | C→T | N365N (AAC→AAT) | dbpA → | ATP‑dependent RNA helicase DbpA |
| RA | 1,494,388 | Δ1 bp | coding (684/924 nt) | ydcI ← | DNA‑binding transcriptional dual regulator YdcI |
| RA | 1,508,106 | G→A | G442G (GGG→GGA) | rlhA → | 23S rRNA 5‑hydroxycytidine C2501 synthase |
| RA | 1,517,508 | G→T | V40V (GTG→GTT) | ortT → | orphan toxin OrtT |
| RA | 1,538,387 | C→T | R156H (CGC→CAC) | narY ← | nitrate reductase Z subunit beta |
| RA | 1,538,412 | C→T | G148S (GGC→AGC) | narY ← | nitrate reductase Z subunit beta |
| RA | 1,539,710 | C→T | E961K (GAA→AAA) | narZ ← | nitrate reductase Z subunit alpha |
| 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 | 1,697,484 | C→T | G186D (GGC→GAC) | hdhA ← | 7‑alpha‑hydroxysteroid dehydrogenase |
| RA | 1,744,751 | Δ1 bp | coding (1295/1374 nt) | mdtK → | multidrug efflux pump MdtK |
| RA | 1,766,994 | G→A | I564I (ATC→ATT) | ydiJ ← | putative FAD‑linked oxidoreductase YdiJ |
| JC JC | 1,792,772 | IS2 (–) +5 bp | intergenic (‑41/+33) | nlpC ← / ← btuD | NlpC/P60 family lipoprotein NlpC/vitamin B12 ABC transporter ATP binding subunit |
| RA | 1,792,977 | G→A | N194N (AAC→AAT) | btuD ← | vitamin B12 ABC transporter ATP binding subunit |
| RA | 1,795,752 | G→A | G731G (GGC→GGT) | pheT ← | phenylalanine‑‑tRNA ligase subunit beta |
| RA | 1,834,806 | G→A | intergenic (+13/‑2) | ydjY → / → ydjZ | 4Fe‑4S ferredoxin‑type domain‑containing protein YdjY/DedA family protein YdjZ |
| RA | 1,837,658 | G→A | W149* (TGG→TGA) | ynjC → | putative ABC transporter membrane subunit YnjC |
| RA | 1,846,553 | G→A | D136D (GAC→GAT) | topB ← | DNA topoisomerase III |
| RA | 1,962,881 | A→G | L31P (CTA→CCA) | flhE ← | flagellar protein FlhE |
| RA | 1,978,243 | G→T | intergenic (‑46/+275) | flhD ← / ← insB5 | DNA‑binding transcriptional dual regulator FlhD/IS1 family protein InsB |
| RA | 2,003,264 | C→T | E115K (GAA→AAA) | fliC ← | flagellar filament structural protein |
| RA | 2,032,423 | G→A | V219V (GTC→GTT) | yedJ ← | putative HD superfamily phosphohydrolase YedJ |
| RA | 2,038,955 | C→T | intergenic (‑132/‑1) | hprR ← / → hiuH | DNA‑binding transcriptional dual regulator HprR/hydroxyisourate hydrolase/transthyretin‑related protein |
| RA | 2,112,861 | C→T | R67R (CGG→CGA) | rfbB ← | dTDP‑glucose 4,6‑dehydratase 1 |
| RA | 2,129,008 | C→T | V215I (GTC→ATC) | wcaE ← | GDP‑Fuc:2/3‑O‑Ac‑alpha‑L‑Fuc‑(1‑>3)‑alpha‑D‑Glc‑ PP‑Und alpha‑(1,4)‑fucosyltransferase |
| RA | 2,146,847 | C→T | D232N (GAT→AAT) | alkA ← | DNA‑3‑methyladenine glycosylase 2 |
| RA | 2,152,816 | C→T | D105N (GAT→AAT) | yegL ← | IPR002035 domain‑containing protein YegL |
| RA | 2,154,726 | C→T | V237V (GTC→GTT) | mdtA → | multidrug efflux pump membrane fusion protein MdtA |
| RA | 2,173,363 | Δ2 bp | intergenic (‑490/+918) | gatD ← / ← gatB | galactitol‑1‑phosphate 5‑dehydrogenase/galactitol‑specific PTS enzyme IIB component |
| RA | 2,181,660 | C→T | L189L (CTG→TTG) | yegV → | putative sugar kinase YegV |
| RA | 2,187,903 | C→T | R171K (AGA→AAA) | yehA ← | putative fimbrial adhesin YehA |
| RA | 2,188,502 | C→T | K803K (AAG→AAA) | yehB ← | putative fimbrial usher protein YehB |
| RA | 2,194,106 | C→T | L21L (CTG→CTA) | mrp ← | P‑loop NTPase family protein Mrp |
| RA | 2,204,319 | T→C | intergenic (+30/‑277) | yehK → / → yehL | uncharacterized protein YehK/putative AAA(+) MoxR family ATPase YehL |
| RA | 2,242,121 | A→G | S283P (TCG→CCG) | yeiB ← | DUF418 domain‑containing protein YeiB |
| RA | 2,251,527 | C→T | R230C (CGC→TGC) | nfo → | endonuclease IV |
| RA | 2,258,643 | G→A | N218N (AAC→AAT) | psuK ← | putative pseudouridine kinase |
| RA | 2,264,035 | C→T | T58I (ACC→ATC) | setB → | sugar exporter SetB |
| RA | 2,267,899 | C→T | A24V (GCC→GTC) | yeiR → | zinc‑binding GTPase YeiR |
| JC JC | 2,269,876 | IS5 (+) +4 bp | intergenic (+309/‑100) | lpxT → / → mepS | lipid A‑core phosphotransferase/peptidoglycan endopeptidase/peptidoglycan L,D‑carboxypeptidase |
| RA | 2,275,757 | G→A | G162E (GGG→GAG) | yejE → | putative oligopeptide ABC transporter membrane subunit YejE |
| JC JC | 2,319,850 | IS2 (+) +5 bp | coding (23‑27/2850 nt) | rcsC ← | histidine kinase RcsC |
| RA | 2,366,708 | C→T | R267C (CGC→TGC) | arnB → | UDP‑4‑amino‑4‑deoxy‑L‑arabinose aminotransferase |
| RA | 2,397,444 | G→A | Q908* (CAA→TAA) | nuoG ← | NADH:quinone oxidoreductase subunit G |
| JC JC | 2,406,780 | IS1 (–) +8 bp | intergenic (‑139/‑774) | lrhA ← / → alaA | DNA‑binding transcriptional dual regulator LrhA/glutamate‑‑pyruvate aminotransferase AlaA |
| RA | 2,509,606 | C→T | intergenic (‑180/‑24) | glk ← / → yfeO | glucokinase/putative transport protein YfeO |
| RA | 2,509,728 | C→T | I33I (ATC→ATT) | yfeO → | putative transport protein YfeO |
| RA | 2,543,800 | C→T | intergenic (‑272/+32) | cysP ← / ← ucpA | thiosulfate/sulfate ABC transporter periplasmic binding protein CysP/oxidoreductase UcpA |
| MC JC | 2,558,699 | Δ6,790 bp | intZ–[eutA] | intZ, yffL, yffM, yffN, yffO, yffP, yffQ, yffR, yffS, [eutA] | |
| JC JC | 2,666,074 | IS1 (+) +9 bp | coding (640‑648/1281 nt) | csiE → | stationary phase‑inducible protein CsiE |
| RA | 3,268,970 | A→G | T186A (ACA→GCA) | yhaC → | uncharacterized protein YhaC |
| RA | 3,486,205 | C→A | T29K (ACG→AAG) | crp → | DNA‑binding transcriptional dual regulator CRP |
| RA | 3,518,339 | G→A | L50F (CTC→TTC) | aroB ← | 3‑dehydroquinate synthase |
| RA | 3,560,455 | +G | intergenic (+589/+167) | rtcR → / ← glpG | DNA‑binding transcriptional activator RtcR/rhomboid protease GlpG |
| RA | 3,565,710 | G→A | S291F (TCC→TTC) | glgP ← | glycogen phosphorylase |
| RA | 3,582,671 | G→A | R270K (AGA→AAA) | yhhZ → | putative endonuclease YhhZ |
| RA | 3,586,071 | G→A | I251I (ATC→ATT) | ggt ← | glutathione hydrolase proenzyme |
| RA | 3,618,708 | G→A | A41T (GCG→ACG) | nikR → | DNA‑binding transcriptional repressor NikR |
| RA | 3,641,902 | G→A | M347I (ATG→ATA) | dtpB → | dipeptide/tripeptide:H(+) symporter DtpB |
| RA | 3,645,029 | G→A | L52F (CTC→TTC) | prlC ← | oligopeptidase A |
| MC JC | 3,682,261 | Δ34 bp | coding (1154‑1187/1287 nt) | dctA ← | C4 dicarboxylate/orotate:H(+) symporter |
| RA | 3,683,289 | G→A | I53I (ATC→ATT) | dctA ← | C4 dicarboxylate/orotate:H(+) symporter |
| RA | 3,731,941 | G→A | A271T (GCA→ACA) | xylF → | xylose ABC transporter periplasmic binding protein |
| JC JC | 3,737,137 | IS2 (+) +5 bp | coding (37‑41/825 nt) | bax ← | putative glycoside hydrolase Bax |
| RA | 3,747,839 | G→A | G252G (GGG→GGA) | lyxK → | L‑xylulose kinase |
| RA | 3,812,084 | G→A | A159V (GCG→GTG) | yicR ← | RadC‑like JAB domain‑containing protein YicR |
| JC JC | 4,123,923 | IS2 (–) +5 bp | coding (530‑534/1026 nt) | cytR ← | DNA‑binding transcriptional repressor CytR |
| JC JC | 4,135,180 | IS2 (–) +5 bp | coding (1346‑1350/2181 nt) | katG → | catalase/hydroperoxidase HPI |
| RA | 4,146,389 | (T)6→7 | coding (132/879 nt) | pflC → | putative pyruvate formate‑lyase 2 activating enzyme PflC |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,347,198 | T→C | E43E (GAA→GAG) | fumB ← | fumarase B |
| RA | 4,377,545 | C→T | V60I (GTC→ATC) | blc ← | outer membrane lipoprotein Blc |
| RA | 4,380,268 | C→T | D84N (GAT→AAT) | frdB ← | fumarate reductase iron‑sulfur protein |
| RA | 4,385,242 | G→A | W468* (TGG→TGA) | yjeM → | putative transporter YjeM |
| RA | 4,394,248 | C→T | R61R (CGC→CGT) | nnr → | NAD(P)HX epimerase/NAD(P)HX dehydratase |
| RA | 4,414,650 | C→T | Q126* (CAG→TAG) | aidB → | putative acyl‑CoA dehydrogenase AidB |
| RA | 4,415,410 | C→T | P379L (CCT→CTT) | aidB → | putative acyl‑CoA dehydrogenase AidB |
| RA | 4,434,410 | A→C | S100R (AGC→CGC) | ytfH → | putative transcriptional regulator YtfH |
| JC JC | 4,536,236 | IS5 (+) +4 bp | intergenic (‑2183/‑358) | topAI ← / → ythB | toxin of the TopAI‑YjhQ toxin‑antitoxin system, TopA inhibitor/protein YthB |
| RA | 4,542,683 | Δ1 bp | intergenic (+50/‑432) | fimE → / → fimA | regulator for fimA/type 1 fimbriae major subunit |
| RA | 4,623,523 | G→A | Q199* (CAG→TAG) | lplA ← | lipoate‑‑protein ligase A |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 1196358 | 1211520 | 15163 | 5 [4] | [4] 5 | [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 | 1979270–1978503 | 9–776 | 29 [0] | [0] 27 | insB5–insA5 | insB5,insA5 |
| * | * | ÷ | NC_000913 | 3423882–3424415 | 3424415 | 1–534 | 5 [4] | [4] 5 | 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) | 47 (1.060) | 42/486 | 0.2 | 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) | 53 (1.210) | 52/482 | 0.1 | NA | noncoding (920/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 382590 | NA (NA) | noncoding (1331/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 566774 | 50 (1.130) | 14 (0.320) | 11/482 | 2.0 | 21.9% | pseudogene (91/93 nt) | renD | protein RenD |
| ? | NC_000913 | 568036 = | 50 (1.140) | pseudogene (2/213 nt) | renD | protein RenD | |||||
| * | ? | NC_000913 | = 1397238 | NA (NA) | 29 (0.650) | 26/486 | 0.7 | 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) | 27 (0.610) | 26/486 | 0.7 | 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 | |||||