mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| RA | 45,813 | C→T | P3S (CCG→TCG) | yaaU → | predicted transporter |
| RA | 52,852 | G→A | H189Y (CAT→TAT) | pdxA ← | 4‑hydroxy‑L‑threonine phosphate dehydrogenase, NAD‑dependent |
| RA | 53,012 | A→G | G135G (GGT→GGC) | pdxA ← | 4‑hydroxy‑L‑threonine phosphate dehydrogenase, NAD‑dependent |
| RA | 65,135 | C→T | D216N (GAT→AAT) | polB ← | DNA polymerase II |
| RA | 70,244 | T→C | intergenic (‑196/‑143) | araB ← / → araC | L‑ribulokinase/DNA‑binding transcriptional dual regulator |
| RA | 155,463 | A→T | *247K (TAA→AAA) | ecpD ← | predicted periplasmic pilin chaperone |
| RA | 230,040 | C→A | R281L (CGC→CTC) | yafC ← | predicted DNA‑binding transcriptional regulator |
| RA | 234,234 | C→T | L183L (TTG→TTA) | gloB ← | predicted hydroxyacylglutathione hydrolase |
| RA | 259,305 | G→A | A7V (GCA→GTA) | phoE ← | outer membrane phosphoporin protein E |
| RA | 344,381 | G→A | intergenic (+166/‑247) | yahL → / → yahM | hypothetical protein/hypothetical protein |
| RA | 381,851 | A→C | G88G (GGT→GGG) | yaiF ← | hypothetical protein |
| RA | 393,168 | T→C | G310G (GGT→GGC) | yaiU → | hypothetical protein |
| RA | 442,006 | G→A | D412N (GAT→AAT) | thiI → | sulfurtransferase required for thiamine and 4‑thiouridine biosynthesis |
| RA | 480,905 | C→T | G908E (GGG→GAG) | acrB ← | multidrug efflux system protein |
| RA | 515,934 | C→T | A43V (GCG→GTG) | ybbM → | predicted inner membrane protein |
| RA | 547,694 | A→G | pseudogene (114/261 nt) pseudogene (114/1259 nt) |
ylbE → ylbE → |
ECK0512:JW0507:b4507; hypothetical protein, N‑ter fragment ECK0512:JW0508+JW0507:b4572; hypothetical protein |
| RA | 547,835 | +G | pseudogene (255/261 nt) pseudogene (255/1259 nt) |
ylbE → ylbE → |
ECK0512:JW0507:b4507; hypothetical protein, N‑ter fragment ECK0512:JW0508+JW0507:b4572; hypothetical protein |
| RA | 556,858 | A→T | L36Q (CTG→CAG) | folD ← | bifunctional 5,10‑methylene‑tetrahydrofolate dehydrogenase and 5,10‑methylene‑tetrahydrofolate cyclohydrolase |
| RA | 579,680 | G→A | intergenic (+371/‑377) | ybcW → / → nohB | hypothetical protein/DNA packaging protein |
| RA | 644,304 | C→T | intergenic (‑78/+36) | rna ← / ← citT | ribonuclease I/citrate:succinate antiporter |
| RA | 644,447 | C→T | G453S (GGC→AGC) | citT ← | citrate:succinate antiporter |
| MC JC | 654,214 | Δ1,199 bp | [dcuC]–[dcuC] | [dcuC], insH, [dcuC] | |
| RA | 742,687 | T→A | I98F (ATC→TTC) | ybgH ← | predicted transporter |
| RA | 810,589 | T→G | M275R (ATG→AGG) | bioB → | biotin synthase |
| RA | 827,597 | C→T | P26P (CCG→CCA) | ybhS ← | predicted transporter subunit |
| RA | 859,070 | G→A | Y138Y (TAC→TAT) | ybiU ← | hypothetical protein |
| RA | 904,996 | G→A | intergenic (‑107/‑19) | ybjP ← / → ybjQ | predicted lipoprotein/conserved hypothetical protein |
| RA | 906,962 | G→A | H72Y (CAC→TAC) | ybjS ← | predicted NAD(P)H oxidoreductase with NAD(P)‑binding Rossmann‑fold domain |
| RA | 913,779 | A→G | L153P (CTG→CCG) | hcp ← | hybrid‑cluster [4Fe‑2S‑2O] protein in anaerobic terminal reductases |
| RA | 927,929 | C→T | Q563Q (CAG→CAA) | cydC ← | fused cysteine transporter subunits and membrane component and ATP‑binding component of ABC superfamily |
| RA | 941,935 | C→T | T185T (ACC→ACT) | dmsA → | dimethyl sulfoxide reductase, anaerobic, subunit A |
| RA | 959,125 | A→G | T351A (ACA→GCA) | serC → | 3‑phosphoserine/phosphohydroxythreonine aminotransferase |
| RA | 1,016,291 | T→C | V52A (GTA→GCA) | rmf → | ribosome modulation factor |
| RA | 1,020,867 | A→G | S159P (TCC→CCC) | sulA ← | SOS cell division inhibitor |
| RA | 1,056,565 | G→A | G12G (GGC→GGT) | torS ← | hybrid sensory histidine kinase in two‑component regulatory system with TorR |
| RA | 1,093,686 | T→C | V130A (GTA→GCA) | ycdT → | predicted diguanylate cyclase |
| RA | 1,109,964 | G→A | C185C (TGC→TGT) | mdoC ← | membrane protein required for modification of periplasmic glucan |
| RA | 1,144,552 | G→A | R465C (CGT→TGT) | rne ← | fused ribonucleaseE endoribonuclease and scaffold for formation of degradosome |
| RA | 1,172,268 | T→C | K1092E (AAG→GAG) | mfd ← | transcription‑repair coupling factor |
| RA | 1,173,170 | C→T | R791H (CGT→CAT) | mfd ← | transcription‑repair coupling factor |
| RA | 1,175,236 | C→A | Q102H (CAG→CAT) | mfd ← | transcription‑repair coupling factor |
| RA | 1,181,288 | T→G | D64E (GAT→GAG) | cobB → | deacetylase of acetyl‑CoA synthetase, NAD‑dependent |
| RA | 1,244,320 | C→T | C113Y (TGC→TAC) | ldcA ← | L,D‑carboxypeptidase A |
| MC JC | 1,301,041 | Δ1,336 bp | insC–insD | insC, insD | |
| RA | 1,303,631 | C→T | Q246Y (CAG→TAT) | oppA → | oligopeptide transporter subunit |
| RA | 1,303,633 | G→T | Q246Y (CAG→TAT) | oppA → | oligopeptide transporter subunit |
| RA | 1,339,708 | G→A | A722T (GCC→ACC) | acnA → | aconitate hydratase 1 |
| RA | 1,357,653 | G→A | P391L (CCC→CTC) | sapA ← | predicted antimicrobial peptide transporter subunit |
| RA | 1,373,368 | G→A | R480H (CGT→CAT) | ycjM → | predicted glucosyltransferase |
| RA | 1,376,428 | G→A | V209M (GTG→ATG) | ycjP → | predicted sugar transporter subunit |
| RA | 1,396,058 | A→G | Y373C (TAT→TGT) | mppA → | murein tripeptide (L‑ala‑gamma‑D‑glutamyl‑meso‑DAP) transporter subunit |
| RA | 1,401,010 | T→C | K77K (AAA→AAG) | fnr ← | DNA‑binding transcriptional dual regulator, global regulator of anaerobic growth |
| RA | 1,463,502 | C→T | P299L (CCG→CTG) | paaJ → | predicted beta‑ketoadipyl CoA thiolase |
| RA | 1,477,935 | G→A | E360K (GAA→AAA) | ydbD → | hypothetical protein |
| RA | 1,521,063 | C→T | S108F (TCC→TTC) | yncB → | predicted oxidoreductase, Zn‑dependent and NAD(P)‑binding |
| RA | 1,522,458 | G→A | R161R (AGG→AGA) | yncC → | predicted DNA‑binding transcriptional regulator |
| RA | 1,569,965 | T→C | Q191Q (CAA→CAG) | yddW ← | predicted liprotein |
| RA | 1,588,010 | T→G | D64A (GAC→GCC) | ydeP ← | predicted oxidoreductase |
| RA | 1,595,970 | (C)8→9 | coding (3831/3978 nt) | ydeK ← | predicted lipoprotein |
| RA | 1,620,710 | C→T | intergenic (‑88/‑124) | marC ← / → marR | predicted transporter/DNA‑binding transcriptional repressor |
| RA | 1,657,562 | T→C | I14T (ATT→ACT) | ynfB → | hypothetical protein |
| RA | 1,692,839 | G→A | G425D (GGT→GAT) | ydgA → | conserved hypothetical protein |
| RA | 1,742,822 | A→G | S400G (AGC→GGC) | ydhC → | predicted transporter |
| RA | 1,753,336 | T→C | T35A (ACG→GCG) | ydhW ← | hypothetical protein |
| RA | 1,761,776 | C→T | L154L (CTG→CTA) | sufS ← | selenocysteine lyase, PLP‑dependent |
| RA | 1,775,080 | T→C | F285F (TTT→TTC) | ydiN → | predicted transporter |
| RA | 1,846,641 | (A)8→7 | intergenic (‑56/+72) | ynjI ← / ← topB | predicted inner membrane protein/DNA topoisomerase III |
| RA | 1,887,874 | T→C | F106L (TTT→CTT) | yeaX → | predicted oxidoreductase |
| RA | 1,927,287 | T→C | L45P (CTT→CCT) | yobB → | conserved hypothetical protein |
| RA | 1,965,064 | G→A | I567I (ATC→ATT) | flhA ← | predicted flagellar export pore protein |
| RA | 1,995,272 | T→C | S524S (TCA→TCG) | uvrC ← | excinuclease UvrABC, endonuclease subunit |
| RA | 2,006,018 | A→G | I4V (ATT→GTT) | fliD → | flagellar filament capping protein |
| RA | 2,035,876 | (T)8→9 | intergenic (‑255/‑312) | yedR ← / → yedS | predicted inner membrane protein/ECK1962:JW5319:b1964; hypothetical protein, N‑ter fragment |
| RA | 2,077,980 | C→T | Y355Y (TAC→TAT) | yeeR → | predicted membrane protein |
| RA | 2,092,365 | A→G | K13E (AAA→GAA) | hisG → | ATP phosphoribosyltransferase |
| RA | 2,157,782 | T→C | L128S (TTG→TCG) | mdtB → | multidrug efflux system, subunit B |
| RA | 2,160,543 | C→T | F7F (TTC→TTT) | mdtC → | multidrug efflux system, subunit C |
| RA | 2,169,967 | (T)7→8 | intergenic (‑10/+159) | yegZ ← / ← yegR | ECK2080:JW5886:b2083; hypothetical protein fragment/hypothetical protein |
| MC JC | 2,176,983 | Δ1,199 bp | [gatA]–[gatA] | [gatA], insH, [gatA] | |
| RA | 2,198,825 | G→A | A398T (GCG→ACG) | metG → | methionyl‑tRNA synthetase |
| RA | 2,233,079 | G→A | A214V (GCG→GTG) | dusC ← | tRNA‑dihydrouridine synthase C |
| RA | 2,258,347 | C→T | E58E (GAG→GAA) | rihB ← | ribonucleoside hydrolase 2 |
| RA | 2,276,693 | Δ1 bp | coding (996/1815 nt) | yejA → | predicted oligopeptide transporter subunit |
| RA | 2,298,699 | (T)5→6 | coding (16/480 nt) | ccmE ← | periplasmic heme chaperone |
| RA | 2,313,823 | T→C | E349G (GAA→GGA) | yojL ← | predicted thiamine biosynthesis lipoprotein |
| RA | 2,315,568 | A→G | G172G (GGT→GGC) | ompC ← | outer membrane porin protein C |
| MC JC | 2,320,795 | Δ1,336 bp | insD–[rcsC] | insD, insC, [rcsC] | |
| RA | 2,325,916 | A→G | N402D (AAT→GAT) | atoS → | sensory histidine kinase in two‑component regulatory system with AtoC |
| RA | 2,350,543 | G→A | V337I (GTA→ATA) | nrdA → | ribonucleoside diphosphate reductase 1, alpha subunit |
| RA | 2,381,932 | Δ1 bp | coding (331/759 nt) | yfbB ← | predicted peptidase |
| RA | 2,397,191 | A→G | F174S (TTC→TCC) | nuoM ← | NADH:ubiquinone oxidoreductase, membrane subunit M |
| RA | 2,427,890 | T→G | I246S (ATT→AGT) | yfcH → | conserved hypothetical protein with NAD(P)‑binding Rossmann‑fold domain |
| RA | 2,453,614 | A→G | A91A (GCT→GCC) | prmB ← | N5‑glutamine methyltransferase |
| RA | 2,488,439 | T→A | K116I (AAA→ATA) | emrK ← | EmrKY‑TolC multidrug resistance efflux pump, membrane fusion protein component |
| RA | 2,501,495 | G→A | S135S (TCG→TCA) | ddg → | palmitoleoyl‑acyl carrier protein (ACP)‑dependent acyltransferase |
| RA | 2,512,691 | (G)5→4 | coding (650/1248 nt) | ypdG ← | predicted enzyme IIC component of PTS |
| RA | 2,541,664 | G→A | E129K (GAA→AAA) | crr → | glucose‑specific enzyme IIA component of PTS |
| RA | 2,552,318 | T→C | F67S (TTT→TCT) | murP → | fused predicted enzyme IIBC components of PTS |
| RA | 2,589,664 | A→T | intergenic (+300/‑239) | acrD → / → yffB | aminoglycoside/multidrug efflux system/conserved hypothetical protein |
| RA | 2,594,104 | G→A | H138Y (CAT→TAT) | ypfI ← | predicted hydrolase |
| RA | 2,599,304 | G→A | M57I (ATG→ATA) | bcp → | thiol peroxidase, thioredoxin‑dependent |
| RA | 2,636,526 | C→T | L261L (CTG→CTA) | yfgL ← | protein assembly complex, lipoprotein component |
| RA | 2,667,558 | T→C | intergenic (‑6/‑130) | hcaR ← / → hcaE | DNA‑binding transcriptional regulator/3‑phenylpropionate dioxygenase, large (alpha) subunit |
| RA | 2,688,036 | T→C | I43V (ATT→GTT) | yfhG ← | conserved hypothetical protein |
| RA | 2,697,845 | G→A | G144D (GGT→GAT) | yfhH → | predicted DNA‑binding transcriptional regulator |
| RA | 2,717,229 | G→A | intergenic (‑45/‑162) | yfiF ← / → trxC | predicted methyltransferase/thioredoxin 2 |
| RA | 2,732,036 | T→A | D265V (GAT→GTT) | clpB ← | protein disaggregation chaperone |
| RA | 2,759,336 | C→T | T45I (ACA→ATA) | yfjJ → | hypothetical protein |
| RA | 2,763,072 | T→A | Q246H (CAA→CAT) | yfjL ← | hypothetical protein |
| RA | 2,773,435 | T→C | L488L (TTG→CTG) | yfjW → | predicted inner membrane protein |
| RA | 2,794,102 | G→A | L398L (TTG→TTA) | gabP → | gamma‑aminobutyrate transporter |
| RA | 2,821,480 | T→C | T316A (ACC→GCC) | recA ← | DNA strand exchange and recombination protein with protease and nuclease activity |
| RA | 2,840,761 | A→G | E372E (GAA→GAG) | ascB → | cryptic 6‑phospho‑beta‑glucosidase |
| RA | 2,860,110 | G→A | V9I (GTC→ATC) | ygbJ → | predicted dehydrogenase, with NAD(P)‑binding Rossmann‑fold domain |
| RA | 2,866,110 | T→A | intergenic (‑20/+160) | rpoS ← / ← nlpD | RNA polymerase, sigma S (sigma 38) factor/predicted outer membrane lipoprotein |
| RA | 2,867,123 | G→A | P96L (CCG→CTG) | nlpD ← | predicted outer membrane lipoprotein |
| RA | 2,876,372 | G→A | intergenic (+98/+853) | iap → / ← ygbF | aminopeptidase in alkaline phosphatase isozyme conversion/hypothetical protein |
| RA | 2,910,539 | C→A | R590L (CGC→CTC) | relA ← | (p)ppGpp synthetase I/GTP pyrophosphokinase |
| RA | 2,916,386 | G→A | E892K (GAA→AAA) | barA → | hybrid sensory histidine kinase, in two‑component regulatory system with UvrY |
| RA | 2,985,254 | G→A | S251N (AGC→AAC) | yqeG → | predicted transporter |
| RA | 3,013,681 | G→A | V11V (GTC→GTT) | yqeC ← | conserved hypothetical protein |
| RA | 3,021,506 | C→T | T512I (ACT→ATT) | xdhD → | fused predicted xanthine/hypoxanthine oxidase, molybdopterin‑binding subunit and Fe‑S binding subunit |
| RA | 3,100,581 | C→T | C70Y (TGC→TAC) | yggL ← | hypothetical protein |
| RA | 3,125,146 | C→T | L11L (CTG→CTA) | glcE ← | glycolate oxidase FAD binding subunit |
| RA | 3,135,166 | A→G | intergenic (‑139/+153) | pitB ← / ← gss | phosphate transporter/fused glutathionylspermidine amidase and glutathionylspermidine synthetase |
| RA | 3,186,703 | T→C | F216F (TTT→TTC) | yqiG → | predicted outer membrane usher protein |
| RA | 3,194,164 | T→C | T416A (ACG→GCG) | rfaE ← | fused heptose 7‑phosphate kinase and heptose 1‑phosphate adenyltransferase |
| RA | 3,205,103 | A→G | intergenic (‑191/‑16) | ygiP ← / → ttdA | predicted DNA‑binding transcriptional regulator/L‑tartrate dehydratase, alpha subunit |
| RA | 3,225,037 | (T)6→5 | coding (148/1434 nt) | ygjI → | predicted transporter |
| MC JC | 3,261,134 | Δ1,199 bp | insH–[tdcD] | insH, [tdcD] | |
| RA | 3,272,678 | A→T | S245S (TCT→TCA) | garL ← | alpha‑dehydro‑beta‑deoxy‑D‑glucarate aldolase |
| RA | 3,358,271 | A→G | K1262R (AAA→AGA) | gltB → | glutamate synthase, large subunit |
| RA | 3,363,356 | G→A | S232N (AGC→AAC) | yhcD → | predicted outer membrane protein |
| RA | 3,400,733 | A→G | I70I (ATT→ATC) | mreB ← | cell wall structural complex MreBCD, actin‑like component MreB |
| RA | 3,447,843 | A→G | V1163V (GTT→GTC) | rpoC ← | RNA polymerase, beta prime subunit |
| RA | 3,459,166 | G→A | A53V (GCT→GTT) | secE ← | preprotein translocase membrane subunit |
| RA | 3,518,471 | T→C | intergenic (‑305/‑120) | yiiU ← / → glpF | conserved hypothetical protein/glycerol facilitator |
| RA | 3,573,836 | A→G | V200A (GTG→GCG) | yihN ← | predicted transporter |
| RA | 3,587,198 | C→T | E840K (GAA→AAA) | polA ← | fused DNA polymerase I 5'‑>3' exonuclease, 3'‑>5' polymerase and 3'‑>5' exonuclease |
| RA | 3,679,440 | A→G | I194V (ATT→GTT) | ilvY → | DNA‑binding transcriptional dual regulator |
| RA | 3,682,573 | G→A | L211L (CTG→TTG) | ilvD ← | dihydroxyacid dehydratase |
| MC JC | 3,742,938 | Δ1,336 bp | insD–insC | insD, insC | |
| MC JC | 3,746,913 | Δ1,199 bp | [tnaB]–[tnaB] | [tnaB], insH, [tnaB] | |
| MC JC | 3,750,593 | Δ1,199 bp | insH | insH | |
| RA | 3,792,109 | Δ1 bp | coding (317/1320 nt) | uhpC → | membrane protein regulates uhpT expression |
| RA | 3,815,914 | T→C | N702D (AAT→GAT) | spoT ← | bifunctional (p)ppGpp synthetase II and guanosine‑3',5'‑bis pyrophosphate 3'‑pyrophosphohydrolase |
| RA | 3,824,280 | T→C | pseudogene (413/687 nt) | rph → | ECK3633:JW3618:b3643; ribonuclease PH |
| RA | 3,824,326 | T→C | pseudogene (459/687 nt) | rph → | ECK3633:JW3618:b3643; ribonuclease PH |
| RA | 3,824,362 | A→T | pseudogene (495/687 nt) | rph → | ECK3633:JW3618:b3643; ribonuclease PH |
| RA | 3,824,368 | G→A | pseudogene (501/687 nt) | rph → | ECK3633:JW3618:b3643; ribonuclease PH |
| RA | 3,824,374 | C→T | pseudogene (507/687 nt) | rph → | ECK3633:JW3618:b3643; ribonuclease PH |
| RA | 3,824,380 | 2 bp→AA | pseudogene (513‑514/687 nt) | rph → | ECK3633:JW3618:b3643; ribonuclease PH |
| RA | 3,824,410 | T→A | pseudogene (543/687 nt) | rph → | ECK3633:JW3618:b3643; ribonuclease PH |
| RA | 3,824,514 | T→C | pseudogene (647/687 nt) | rph → | ECK3633:JW3618:b3643; ribonuclease PH |
| RA | 3,824,524 | T→G | pseudogene (657/687 nt) | rph → | ECK3633:JW3618:b3643; ribonuclease PH |
| RA | 3,824,537 | +G | pseudogene (670/687 nt) | rph → | ECK3633:JW3618:b3643; ribonuclease PH |
| RA | 3,989,743 | (G)7→6 | intergenic (‑617/+12) | yhiS ← / ← arsC | hypothetical protein/arsenate reductase |
| RA | 4,066,786 | C→T | intergenic (+144/‑129) | asd → / → glgB | aspartate‑semialdehyde dehydrogenase, NAD(P)‑binding/1,4‑alpha‑glucan branching enzyme |
| RA | 4,071,423 | +A | coding (335/1296 nt) | glgC → | glucose‑1‑phosphate adenylyltransferase |
| RA | 4,103,301 | A→G | R102R (CGT→CGC) | greB ← | transcription elongation factor |
| RA | 4,131,742 | (G)5→6 | coding (1138/1227 nt) | yhfW → | predicted mutase |
| RA | 4,154,666 | A→G | I23V (ATT→GTT) | yhfA → | conserved hypothetical protein |
| RA | 4,155,147 | +A | coding (782/870 nt) | prkB ← | predicted phosphoribulokinase |
| RA | 4,268,686 | C→T | L261L (CTG→TTG) | dnaB → | replicative DNA helicase |
| RA | 4,271,811 | A→G | Y369C (TAT→TGT) | tyrB → | tyrosine aminotransferase, tyrosine‑repressible, PLP‑dependent |
| RA | 4,292,897 | C→T | L21L (CTG→TTG) | nrfB → | nitrite reductase, formate‑dependent, penta‑heme cytochrome c |
| RA | 4,295,565 | T→C | F154F (TTT→TTC) | nrfE → | heme lyase (NrfEFG) for insertion of heme into c552, subunit NrfE |
| MC JC | 4,310,365 | Δ1,199 bp | insH–[alsK] | insH, [alsK] | |
| RA | 4,371,276 | (A)5→3 | intergenic (‑9/+296) | dcuA ← / ← aspA | C4‑dicarboxylate antiporter/aspartate ammonia‑lyase |
| RA | 4,421,418 | C→T | R12Q (CGG→CAG) | yjfO ← | conserved hypothetical protein |
| RA | 4,428,265 | +G | coding (738/855 nt) | ulaE → | L‑xylulose 5‑phosphate 3‑epimerase |
| RA | 4,486,264 | C→T | P752P (CCG→CCA) | valS ← | valyl‑tRNA synthetase |
| RA | 4,491,067 | G→A | V56V (GTG→GTA) | yjgP → | conserved inner membrane protein |
| RA | 4,501,500 | A→G | Q23Q (CAA→CAG) | intB → | predicted integrase |
| RA | 4,501,608 | A→G | K59K (AAA→AAG) | intB → | predicted integrase |
| RA | 4,549,749 | C→T | intergenic (+38/‑29) | fimC → / → fimD | chaperone, periplasmic/outer membrane usher protein, type 1 fimbrial synthesis |
| RA | 4,553,062 | T→C | G32G (GGT→GGC) | fimG → | minor component of type 1 fimbriae |
| RA | 4,563,589 | T→A | K207M (AAG→ATG) | iadA ← | isoaspartyl dipeptidase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | W3110S.gb | 282911 | 282912 | 2 | 3 [0] | [0] 4 | yagF | predicted dehydratase |
| * | * | ÷ | W3110S.gb | 283057 | 283151 | 95 | 2 [1] | [1] 2 | yagF | predicted dehydratase |
| * | * | ÷ | W3110S.gb | 285753 | 285780 | 28 | 9 [0] | [1] 2 | yagG | predicted sugar transporter |
| * | * | ÷ | W3110S.gb | 286788 | 286852 | 65 | 2 [1] | [0] 5 | yagH | predicted xylosidase/arabinosidase |
| * | * | ÷ | W3110S.gb | 287731 | 287761 | 31 | 5 [1] | [0] 3 | yagI | predicted DNA‑binding transcriptional regulator |
| * | * | ÷ | W3110S.gb | 340898 | 340901 | 4 | 4 [0] | [0] 12 | yahJ | predicted deaminase with metallo‑dependent hydrolase domain |
| * | * | ÷ | W3110S.gb | 422758 | 422775 | 18 | 6 [0] | [0] 3 | malZ | maltodextrin glucosidase |
| * | * | ÷ | W3110S.gb | 509172 | 509192 | 21 | 5 [1] | [0] 2 | copA | copper transporter |
| * | * | ÷ | W3110S.gb | 573875–575007 | 575999 | 993–2125 | 6 [0] | [0] 89 | insH–[nmpC] | insH,[nmpC] |
| * | * | ÷ | W3110S.gb | 595285 | 595288 | 4 | 5 [0] | [0] 3 | cusC | copper/silver efflux system, outer membrane component |
| * | * | ÷ | W3110S.gb | 598767 | 598800 | 34 | 2 [1] | [0] 2 | cusA | copper/silver efflux system, membrane component |
| * | * | ÷ | W3110S.gb | 721523 | 721551 | 29 | 2 [0] | [0] 6 | kdpE | DNA‑binding response regulator in two‑component regulatory system with KdpD |
| * | * | ÷ | W3110S.gb | 724431 | 724440 | 10 | 4 [0] | [0] 3 | kdpD | fused sensory histidine kinase in two‑component regulatory system with KdpE |
| * | * | ÷ | W3110S.gb | 743323 | 743341 | 19 | 2 [0] | [1] 7 | ybgI | conserved metal‑binding protein |
| * | * | ÷ | W3110S.gb | 837465 | 837473 | 9 | 4 [0] | [1] 8 | ybiC | predicted dehydrogenase |
| * | * | ÷ | W3110S.gb | 845731 | 845735 | 5 | 3 [0] | [1] 4 | ybiO | predicted mechanosensitive channel |
| * | * | ÷ | W3110S.gb | 860911 | 860914 | 4 | 5 [0] | [1] 3 | ybiW | predicted pyruvate formate lyase |
| * | * | ÷ | W3110S.gb | 911777 | 911808 | 32 | 12 [1] | [0] 5 | hcr | HCP oxidoreductase, NADH‑dependent |
| * | * | ÷ | W3110S.gb | 939927 | 939928 | 2 | 3 [0] | [0] 4 | serS | seryl‑tRNA synthetase, also charges selenocysteinyl‑tRNA with serine |
| * | * | ÷ | W3110S.gb | 976968 | 976970 | 3 | 5 [0] | [0] 10 | mukB | fused chromosome partitioning proteins |
| * | * | ÷ | W3110S.gb | 982202 | 982216 | 15 | 3 [0] | [0] 14 | ycbB | predicted carboxypeptidase |
| * | * | ÷ | W3110S.gb | 1023056 | 1023060 | 5 | 3 [0] | [0] 2 | yccS | predicted inner membrane protein |
| * | * | ÷ | W3110S.gb | 1030061 | 1030062 | 2 | 3 [0] | [0] 6 | yccW | predicted methyltransferase |
| * | * | ÷ | W3110S.gb | 1041910 | 1041911 | 2 | 2 [0] | [0] 4 | appA | phosphoanhydride phosphorylase |
| * | * | ÷ | W3110S.gb | 1081327 | 1081363 | 37 | 4 [0] | [0] 10 | putP/ycdN | proline:sodium symporter/ECK1007:JW5141:b1016; hypothetical protein, N‑ter fragment |
| * | * | ÷ | W3110S.gb | 1171859 | 1171867 | 9 | 5 [0] | [0] 6 | ycfS | conserved hypothetical protein |
| * | * | ÷ | W3110S.gb | 1251331 | 1251380 | 50 | 2 [1] | [0] 8 | [dhaL]–[dhaK] | [dhaL],[dhaK] |
| * | * | ÷ | W3110S.gb | 1328311 | 1328351 | 41 | 2 [1] | [0] 2 | yciQ | predicted inner membrane protein |
| * | * | ÷ | W3110S.gb | 1338233 | 1338234 | 2 | 6 [0] | [0] 4 | acnA | aconitate hydratase 1 |
| * | * | ÷ | W3110S.gb | 1339007 | 1339007 | 1 | 9 [0] | [0] 3 | acnA | aconitate hydratase 1 |
| * | * | ÷ | W3110S.gb | 1352915 | 1352929–1352918 | 4–15 | 4 [1] | [1] 5 | fabI/ycjD | enoyl‑[acyl‑carrier‑protein] reductase, NADH‑dependent/conserved hypothetical protein |
| * | * | ÷ | W3110S.gb | 1371194 | 1371235 | 42 | 2 [0] | [1] 3 | pspD | peripheral inner membrane phage‑shock protein |
| * | * | ÷ | W3110S.gb | 1382364 | 1382371 | 8 | 3 [0] | [0] 2 | ycjU | predicted beta‑phosphoglucomutase |
| * | * | ÷ | W3110S.gb | 1421322 | 1421323 | 2 | 10 [0] | [0] 6 | ydaG/racR | hypothetical protein/predicted DNA‑binding transcriptional regulator |
| * | * | ÷ | W3110S.gb | 1431518 | 1431525 | 8 | 7 [0] | [0] 4 | stfR | predicted tail fiber protein |
| * | * | ÷ | W3110S.gb | 1785967 | 1785978 | 12 | 7 [1] | [1] 5 | ydiD | short chain acyl‑CoA synthetase, anaerobic |
| * | * | ÷ | W3110S.gb | 1797529 | 1797540 | 12 | 5 [0] | [1] 3 | pheT | phenylalanine tRNA synthetase, beta subunit |
| * | * | ÷ | W3110S.gb | 1828092 | 1828140 | 49 | 5 [1] | [0] 8 | astE | succinylglutamate desuccinylase |
| * | * | ÷ | W3110S.gb | 1904252 | 1904264 | 13 | 2 [0] | [0] 5 | manX | fused mannose‑specific PTS enzyme IIAB components |
| * | * | ÷ | W3110S.gb | 1926080 | 1926091 | 12 | 6 [1] | [0] 3 | yebZ | predicted inner membrane protein |
| * | * | ÷ | W3110S.gb | 2015095 | 2015109 | 15 | 5 [0] | [0] 11 | fliE | flagellar basal‑body component |
| * | * | ÷ | W3110S.gb | 2041774 | 2041808 | 35 | 3 [0] | [0] 3 | yedY | predicted reductase |
| * | * | ÷ | W3110S.gb | 2048443 | 2048443 | 1 | 21 [0] | [0] 2 | yeeJ | adhesin |
| * | * | ÷ | W3110S.gb | 2061111 | 2061126 | 16 | 5 [1] | [1] 2 | yeeO | predicted multidrug efflux system |
| * | * | ÷ | W3110S.gb | 2070543 | 2070548 | 6 | 2 [1] | [0] 2 | insH/yoeA | IS5 transposase and trans‑activator/CP4‑44 prophage region; ECK1989:JW5326:b1995; predicted disrupted hemin or colicin receptor |
| * | * | ÷ | W3110S.gb | 2129599 | 2129602 | 4 | 3 [0] | [0] 8 | gmd | GDP‑D‑mannose dehydratase, NAD(P)‑binding |
| * | * | ÷ | W3110S.gb | 2181529 | 2181530 | 2 | 12 [1] | [0] 25 | fbaB | fructose‑bisphosphate aldolase class I |
| * | * | ÷ | W3110S.gb | 2296359 | 2296415 | 57 | 6 [0] | [1] 4 | ccmF | heme lyase, CcmF subunit |
| * | * | ÷ | W3110S.gb | 2303453 | 2303491 | 39 | 4 [0] | [1] 4 | napG | ferredoxin‑type protein essential for electron transfer from ubiquinol to periplasmic nitrate reductase (NapAB) |
| * | * | ÷ | W3110S.gb | 2569114 | 2569126 | 13 | 2 [1] | [0] 9 | eutE | predicted aldehyde dehydrogenase, ethanolamine utilization protein |
| * | * | ÷ | W3110S.gb | 2571609 | 2571610 | 2 | 6 [0] | [0] 2 | eutI | predicted phosphotransacetylase subunit |
| * | * | ÷ | W3110S.gb | 2662101 | 2662120 | 20 | 4 [0] | [0] 3 | suhB | inositol monophosphatase |
| * | * | ÷ | W3110S.gb | 2714522 | 2714535 | 14 | 7 [0] | [0] 2 | yfiK | neutral amino‑acid efflux system |
| * | * | ÷ | W3110S.gb | 2827377 | 2827403 | 27 | 3 [0] | [0] 3 | gutM | DNA‑binding transcriptional activator |
| * | * | ÷ | W3110S.gb | 3566207 | 3566208 | 2 | 2 [1] | [0] 3 | yihS/yihR | predicted glucosamine isomerase/predicted aldose‑1‑epimerase |
| * | * | ÷ | W3110S.gb | 3799024 | 3799047 | 24 | 3 [0] | [0] 4 | yicM | predicted transporter |
| * | * | ÷ | W3110S.gb | 3859266 | 3859315 | 50 | 5 [1] | [1] 11 | yibK/lldD | predicted rRNA methylase/L‑lactate dehydrogenase, FMN‑linked |
| * | * | ÷ | W3110S.gb | 3912257 | 3912258 | 2 | 2 [0] | [0] 7 | xylB | xylulokinase |
| * | * | ÷ | W3110S.gb | 4077337 | 4077340 | 4 | 3 [0] | [1] 3 | glpD | sn‑glycerol‑3‑phosphate dehydrogenase, aerobic, FAD/NAD(P)‑binding |
| * | * | ÷ | W3110S.gb | 4213641–4215889 | 4216699–4215891 | 3–3059 | 3 [0] | [1] 3 | [rrlE]–[rrfE] | [rrlE],[rrfE] |
| * | * | ÷ | W3110S.gb | 4401147 | 4401160 | 14 | 3 [1] | [0] 7 | amiB | N‑acetylmuramoyl‑l‑alanine amidase II |
| * | * | ÷ | W3110S.gb | 4522152 | 4522158 | 7 | 2 [0] | [1] 3 | fecR | transmembrane signal transducer for ferric citrate transport |
| * | * | ÷ | W3110S.gb | 4619299–4619315 | 4619315 | 1–17 | 3 [0] | [1] 13 | yjjV/yjjW | predicted DNase/predicted pyruvate formate lyase activating enzyme |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | W3110S.gb | = 274373 | NA (NA) | 89 (1.660) | 5/126 | 0.9 | 100% | intergenic (‑32/‑176) | insH/mmuP | IS5 transposase and trans‑activator/predicted S‑methylmethionine transporter |
| ? | W3110S.gb | 576000 = | 0 (0.000) | pseudogene (109/1128 nt) | nmpC | DLP12 prophage region; ECK0544:JW5078:b0553; truncated outer membrane porin | |||||
| * | ? | W3110S.gb | 314453 = | 56 (1.040) | 63 (1.210) +TC |
11/122 | 0.3 | 69.9% | coding (873/888 nt) | eaeH | attaching and effacing protein, pathogenesis factor |
| ? | W3110S.gb | 3932930 = | 0 (0.000) | coding (219/1608 nt) | dppA | dipeptide transporter | |||||
| * | ? | W3110S.gb | = 315707 | NA (NA) | 90 (1.680) | 15/126 | 0.2 | 100% | coding (654/687 nt) | ykgA | predicted DNA‑binding transcriptional regulator |
| ? | W3110S.gb | 576911 = | 0 (0.000) | coding (76/498 nt) | ybcS | predicted lysozyme | |||||
| * | ? | W3110S.gb | 566000 = | NA (NA) | 30 (0.560) | 7/126 | 0.7 | 66.7% | intergenic (+90/‑56) | ybcD/insE | DLP12 prophage region; ECK0532:JW0527:b4508; predicted replication protein fragment/IS3 element protein InsE |
| ? | W3110S.gb | = 576913 | 15 (0.280) | coding (78/498 nt) | ybcS | predicted lysozyme | |||||
| * | ? | W3110S.gb | 2018571 = | 0 (0.000) | 45 (0.880) | 10/120 | 0.4 | 100% | coding (567/687 nt) | fliH | flagellar biosynthesis protein |
| ? | W3110S.gb | 2519723 = | NA (NA) | intergenic (+33/‑54) | nupC/insL | nucleoside (except guanosine) transporter/predicted transposase | |||||
| * | ? | W3110S.gb | = 2018583 | 4 (0.070) | 51 (0.980) | 8/122 | 0.5 | 93.0% | coding (579/687 nt) | fliH | flagellar biosynthesis protein |
| ? | W3110S.gb | = 2521059 | NA (NA) | intergenic (+170/+30) | insL/yfeA | predicted transposase/predicted diguanylate cyclase | |||||
| * | ? | W3110S.gb | 2172308 = | NA (NA) | 44 (0.830) | 10/124 | 0.4 | 88.2% | pseudogene (1563/2041 nt) | gatR | DNA‑binding transcriptional regulator; ECK2083:JW5340+JW2074:b4498 |
| ? | W3110S.gb | = 3920281 | 6 (0.110) | coding (88/213 nt) | cspA | major cold shock protein | |||||
| * | ? | W3110S.gb | = 2173564 | NA (NA) | 14 (0.270) | 7/124 | 0.6 | 87.7% | pseudogene (307/2041 nt) pseudogene (307/339 nt) |
gatR gatR |
DNA‑binding transcriptional regulator; ECK2083:JW5340+JW2074:b4498 DNA‑binding transcriptional regulator, C‑ter fragment; ECK2083:JW2074:b2090 |
| ? | W3110S.gb | 3920278 = | 2 (0.040) | coding (91/213 nt) | cspA | major cold shock protein | |||||
| * | ? | W3110S.gb | = 2173565 | NA (NA) | 55 (1.020) | 15/126 | 0.2 | 98.2% | pseudogene (306/2041 nt) pseudogene (306/339 nt) |
gatR gatR |
DNA‑binding transcriptional regulator; ECK2083:JW5340+JW2074:b4498 DNA‑binding transcriptional regulator, C‑ter fragment; ECK2083:JW2074:b2090 |
| ? | W3110S.gb | = 3932933 | 1 (0.020) | coding (222/1608 nt) | dppA | dipeptide transporter | |||||
| * | ? | W3110S.gb | = 2412225 | NA (NA) | 112 (2.090) | 21/126 | 0.0 | 96.5% | intergenic (‑55/‑782) | insA/yfbQ | IS1 element protein/predicted aminotransferase |
| ? | W3110S.gb | = 3748807 | 4 (0.070) | coding (176/984 nt) | tnaB | tryptophan transporter of low affinity | |||||
| * | ? | W3110S.gb | 3748799 = | 15 (0.280) | 60 (1.120) | 17/126 | 0.1 | 80.0% | coding (184/984 nt) | tnaB | tryptophan transporter of low affinity |
| ? | W3110S.gb | 4056222 = | NA (NA) | intergenic (‑564/+15) | yrhB/insB | hypothetical protein/IS1 transposase InsAB' | |||||
| * | ? | W3110S.gb | 4547364 = | 11 (0.200) | 16 (0.350) | 5/108 | 0.8 | 58.8% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin |
| ? | W3110S.gb | 4547678 = | 13 (0.280) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin | |||||
| * | ? | W3110S.gb | = 4547372 | 11 (0.200) | 10 (0.220) | 4/108 | 1.0 | 47.2% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin |
| ? | W3110S.gb | = 4547668 | 13 (0.280) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin | |||||