mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| RA | 4,237 | A→G | K168K (AAA→AAG) | thrC → | threonine synthase |
| RA | 5,201 | A→G | intergenic (+181/‑33) | thrC → / → yaaX | threonine synthase/DUF2502 domain‑containing protein YaaX |
| RA | 9,927 | A→C | intergenic (+34/+1) | mog → / ← satP | molybdopterin adenylyltransferase/acetate/succinate:H(+) symporter |
| RA | 58,877 | A→G | N135S (AAT→AGT) | yabP → | putative uncharacterized protein YabP |
| RA | 92,197 | C→T | A262V (GCC→GTC) | ftsI → | peptidoglycan DD‑transpeptidase FtsI |
| RA | 111,230 | (C)6→7 | coding (187/390 nt) | mutT → | 8‑oxo‑dGTP diphosphatase |
| RA | 132,902 | T→C | C430R (TGC→CGC) | acnB → | hypothetical protein |
| RA | 164,927 | A→C | L66L (CTA→CTC) | mrcB → | peptidoglycan glycosyltransferase/peptidoglycan DD‑transpeptidase MrcB |
| RA | 166,957 | A→C | Y743S (TAT→TCT) | mrcB → | peptidoglycan glycosyltransferase/peptidoglycan DD‑transpeptidase MrcB |
| RA | 168,090 | A→G | T203A (ACT→GCT) | fhuA → | ferrichrome outer membrane transporter/phage receptor |
| RA | 188,652 | G→T | intergenic (‑2/+60) | glnD ← / ← map | PII uridylyltransferase/uridylyl removing enzyme/methionine aminopeptidase |
| RA | 202,482 | A→C | K128Q (AAA→CAA) | fabZ → | 3‑hydroxy‑acyl‑[acyl‑carrier‑protein] dehydratase |
| RA | 205,071 | A→G | A193A (GCA→GCG) | rnhB → | RNase HII |
| RA | 249,082 | G→A | pseudogene (989/1713 nt) | lfhA ← | flagellar system protein, promoterless fragment |
| RA | 249,545 | T→C | pseudogene (526/1713 nt) | lfhA ← | flagellar system protein, promoterless fragment |
| RA | 256,406 | G→C | V144L (GTA→CTA) | gpt → | xanthine‑guanine phsophoribosyltransferase |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 277,906 | A→T | Y299* (TAT→TAA) | afuC ← | CP4‑6 prophage; ABC transporter ATP‑binding protein AfuC |
| RA | 283,510 | A→G | T104A (ACC→GCC) | yagF → | CP4‑6 prophage; D‑xylonate dehydratase |
| RA | 308,054 | (C)7→8 | coding (1279/2526 nt) | ecpC ← | putative fimbrial usher protein EcpC |
| RA | 327,519 | A→C | I405M (ATT→ATG) | betB ← | betaine aldehyde dehydrogenase |
| RA | 328,751 | T→G | D195A (GAT→GCT) | betI ← | DNA‑binding transcriptional repressor BetI |
| RA | 362,014 | G→A | A389V (GCG→GTG) | lacY ← | lactose permease |
| RA | 380,022 | (G)10→9 | intergenic (‑141/+47) | frmR ← / ← yaiO | DNA‑binding transcriptional repressor FrmR/outer membrane protein YaiO |
| RA | 417,935 | T→C | L16P (CTT→CCT) | phoR → | sensory histidine kinase PhoR |
| RA | 423,231 | G→A | Q238Q (CAG→CAA) | malZ → | maltodextrin glucosidase |
| RA | 431,181 | T→C | N278S (AAC→AGC) | tsx ← | nucleoside‑specific channel‑forming protein Tsx |
| RA | 474,228 | C→T | H421H (CAC→CAT) | amtB → | ammonia/ammonium transporter |
| RA | 485,852 | C→T | S31F (TCC→TTC) | acrR → | DNA‑binding transcriptional repressor AcrR |
| RA | 501,943 | (C)5→6 | coding (1296/1677 nt) | ybaL ← | putative transporter YbaL |
| RA | 510,996 | A→C | T128T (ACT→ACG) | copA ← | Cu(+) exporting P‑type ATPase |
| RA | 514,711 | G→A | P50L (CCG→CTG) | ybbJ ← | NfeD‑like family protein |
| RA | 522,457 | T→G | L681R (CTG→CGG) | ybbP → | putative ABC transporter membrane subunit YbbP |
| RA | 527,577 | T→C | intergenic (+36/‑4) | rhsD → / → ybbC | protein RhsD/PF15631 family protein YbbC |
| RA | 573,777 | (G)5→4 | coding (48/141 nt) | ylcG → | DLP12 prophage; uncharacterized protein YlcG |
| RA | 581,288 | A→C | K152T (AAA→ACA) | nohD → | DLP12 prophage; putative DNA‑packaging protein NohD |
| RA | 656,095 | A→C | intergenic (‑127/‑462) | dcuC ← / → pagP | anaerobic C4‑dicarboxylate transporter DcuC/Lipid IVA palmitoyltransferase |
| RA | 666,217 | G→T | L33M (CTG→ATG) | mrdB ← | SEDS family protein MrdB |
| RA | 669,834 | (G)6→7 | coding (74/612 nt) | cobC ← | putative adenosylcobalamin phosphatase/alpha‑ribazole phosphatase |
| RA | 669,942 | A→G | L211L (TTG→CTG) | nadD ← | nicotinate‑mononucleotide adenylyltransferase |
| RA | 705,972 | (T)9→8 | intergenic (+82/‑121) | nagE → / → glnS | N‑acetylglucosamine specific PTS enzyme IIABC component/glutamine‑‑tRNA ligase |
| RA | 742,864 | A→G | K13R (AAA→AGA) | ybgI → | radiation resistance protein YbgI |
| RA | 744,100 | A→G | T170A (ACT→GCT) | pxpB → | 5‑oxoprolinase component B |
| RA | 752,258 | T→G | N180H (AAC→CAC) | ybgD ← | putative fimbrial protein YbgD |
| RA | 784,092 | T→G | V244V (GTA→GTC) | zitB ← | Zn(2(+))/Cd(2(+))/Ni(2(+))/Cu(2(+)) exporter |
| RA | 786,340 | T→C | G236G (GGT→GGC) | aroG → | 3‑deoxy‑7‑phosphoheptulonate synthase, Phe‑sensitive |
| RA | 792,328 | (T)5→4 | coding (1461/1473 nt) | modF ← | ABC family protein ModF |
| RA | 817,869 | T→C | F276L (TTT→CTT) | moaA → | GTP 3',8'‑cyclase |
| RA | 830,378 | T→C | Q89R (CAG→CGG) | cecR ← | DNA‑binding transcriptional dual regulator CecR |
| RA | 858,226 | A→G | V279A (GTG→GCG) | ybiU ← | DUF1479 domain‑containing protein YbiU |
| RA | 874,796 | A→G | R606R (AGA→AGG) | pdeI → | putative c‑di‑GMP phosphodiesterase PdeI |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 890,526 | A→G | A76A (GCT→GCC) | grxA ← | reduced glutaredoxin 1 |
| RA | 898,332 | A→G | Y115C (TAC→TGC) | ybjO → | putative inner membrane protein |
| RA | 917,539 | T→G | L356W (TTG→TGG) | ybjD → | DUF2813 domain‑containing protein YbjD |
| RA | 932,340 | (A)8→7 | intergenic (‑290/‑255) | trxB ← / → lrp | thioredoxin reductase/DNA‑binding transcriptional dual regulator Lrp |
| RA | 934,042 | T→G | D273E (GAT→GAG) | ftsK → | cell division DNA translocase FtsK |
| RA | 956,500 | A→G | S45P (TCT→CCT) | ycaO ← | ribosomal protein S12 methylthiotransferase accessory factor YcaO |
| RA | 958,854 | A→G | T15A (ACT→GCT) | aroA → | 3‑phosphoshikimate 1‑carboxyvinyltransferase |
| RA | 981,308 | C→T | P88S (CCG→TCG) | ldtD → | L,D‑transpeptidase LdtD |
| RA | 1,010,898 | C→T | A312V (GCC→GTC) | uup → | ATP‑binding protein with possible role in replication |
| RA | 1,011,270 | C→T | T436M (ACG→ATG) | uup → | ATP‑binding protein with possible role in replication |
| RA | 1,044,474 | G→T | A68D (GCC→GAC) | etp ← | phosphotyrosine‑protein phosphatase |
| RA | 1,048,748 | C→T | R195R (CGG→CGA) | gfcB ← | lipoprotein GfcB |
| RA | 1,051,398 | C→T | intergenic (‑223/‑63) | cspH ← / → cspG | CspA family protein CspH/cold shock protein CspG |
| RA | 1,053,497 | T→C | E894E (GAA→GAG) | torS ← | sensory histidine kinase TorS |
| RA | 1,059,436 | (G)6→7 | coding (181/2547 nt) | torA → | trimethylamine N‑oxide reductase 1 |
| RA | 1,079,319 | A→G | T5T (ACA→ACG) | putP → | proline:Na(+) symporter |
| RA | 1,081,167 | A→C | intergenic (+354/‑189) | putP → / → efeU | proline:Na(+) symporter/inactive ferrous iron permease EfeU, N‑terminal fragment |
| RA | 1,106,285 | T→C | F156L (TTT→CTT) | ymdB → | 2'‑O‑acetyl‑ADP‑ribose deacetylase, regulator of RNase III activity |
| RA | 1,143,140 | T→C | T410A (ACT→GCT) | rne ← | ribonuclease E |
| RA | 1,191,861 | A→G | R42R (CGT→CGC) | purB ← | adenylosuccinate lyase |
| RA | 1,192,954 | C→T | A274T (GCT→ACT) | mnmA ← | tRNA‑specific 2‑thiouridylase |
| RA | 1,208,003 | A→G | N168S (AAT→AGT) | ycfK → | e14 prophage; protein StfP |
| RA | 1,212,088 | (C)8→9 | intergenic (‑85/+172) | iraM ← / ← ymgK | anti‑adaptor protein IraM, inhibitor of sigma(S) proteolysis/protein YmgK |
| RA | 1,220,971 | G→A | pseudogene (1371/2648 nt) | ycgH → | putative transporter component, N‑terminal fragment |
| RA | 1,230,015 | A→G | L127P (CTG→CCG) | hlyE ← | hemolysin E |
| RA | 1,248,707 | A→G | G136G (GGT→GGC) | dhaM ← | dihydroxyacetone kinase subunit M |
| RA | 1,314,972 | C→T | G85S (GGT→AGT) | yciE ← | DUF892 domain‑containing protein YciE |
| RA | 1,363,657 | A→C | G305G (GGA→GGC) | puuC → | gamma‑glutamyl‑gamma‑aminobutyraldehyde dehydrogenase |
| RA | 1,406,519 | C→T | R181C (CGC→TGC) | smrA → | DNA endonuclease SmrA |
| RA | 1,417,350 | T→G | K13Q (AAA→CAA) | recE ← | Rac prophage; exonuclease VIII, ds DNA exonuclease, 5' ‑‑> 3' specific |
| RA | 1,454,938 | T→C | V24A (GTT→GCT) | paaB → | phenylacetyl‑CoA 1,2‑epoxidase subunit B |
| RA | 1,487,050 | T→G | intergenic (+87/‑185) | hrpA → / → ydcF | ATP‑dependent RNA helicase HrpA/DUF218 domain‑containing protein YdcF |
| RA | 1,511,133 | T→C | R377R (CGT→CGC) | ydcR → | fused putative DNA‑binding transcriptional regulator/putative aminotransferase YdcR |
| RA | 1,511,751 | A→G | E33G (GAA→GGA) | ydcS → | putative ABC transporter periplasmic binding protein/polyhydroxybutyrate synthase |
| RA | 1,535,078 | G→A | R261C (CGT→TGT) | yddE ← | PF02567 family protein YddE |
| RA | 1,541,351 | C→T | E414K (GAA→AAA) | narZ ← | nitrate reductase Z subunit alpha |
| RA | 1,550,077 | A→G | T893A (ACG→GCG) | fdnG → | formate dehydrogenase N subunit alpha |
| RA | 1,568,689 | T→C | P45P (CCA→CCG) | yddW ← | putative lipoprotein YddW |
| RA | 1,577,522 | A→C | M33R (ATG→AGG) | yddB ← | putative TonB‑dependent receptor |
| RA | 1,585,101 | (C)6→7 | coding (1386/2280 nt) | ydeP ← | putative oxidoreductase YdeP |
| RA | 1,590,491 | T→C | pseudogene (46/203 nt) | yneL ← | putative HTH‑type transcriptional regulator YneL |
| JC | 1,594,256 | (C)8→11 | pseudogene (3831/5422 nt) | yneO ← | AIDA‑I family autotransporter YneO |
| RA | 1,612,466 | A→C | V262V (GTT→GTG) | glsB ← | glutaminase 2 |
| RA | 1,631,808 | C→A | A160S (GCG→TCG) | ydfJ ← | putative transporter YdfJ |
| RA | 1,634,642 | C→T | G82S (GGC→AGC) | tfaQ ← | Qin prophage; putative tail fiber assembly protein TfaQ |
| RA | 1,635,269 | C→T | A193A (GCG→GCA) | ydfN ← | Qin prophage; putative side tail fiber assembly protein |
| RA | 1,635,293 | G→A | T185T (ACC→ACT) | ydfN ← | Qin prophage; putative side tail fiber assembly protein |
| RA | 1,635,296 | T→G | G184G (GGA→GGC) | ydfN ← | Qin prophage; putative side tail fiber assembly protein |
| RA | 1,635,322 | C→T | E176K (GAA→AAA) | ydfN ← | Qin prophage; putative side tail fiber assembly protein |
| RA | 1,635,335 | C→T | T171T (ACG→ACA) | ydfN ← | Qin prophage; putative side tail fiber assembly protein |
| RA | 1,666,361 | A→G | E349E (GAA→GAG) | clcB → | putative chloride:H(+) antiporter ClcB |
| RA | 1,667,893 | (C)5→6 | coding (672/1221 nt) | mlc ← | DNA‑binding transcriptional repressor Mlc |
| RA | 1,677,049 | T→C | A285A (GCA→GCG) | pntA ← | pyridine nucleotide transhydrogenase subunit alpha |
| RA | 1,685,542 | (C)6→5 | coding (1047/1404 nt) | fumC ← | fumarase C |
| RA | 1,700,138 | A→G | T262A (ACC→GCC) | malX → | PTS enzyme IIBC component MalX |
| RA | 1,730,251 | A→G | I389V (ATT→GTT) | lhr → | putative ATP‑dependent helicase Lhr |
| RA | 1,747,140 | A→C | I4L (ATT→CTT) | ydhS → | FAD/NAD(P) binding domain‑containing protein YdhS |
| RA | 1,762,442 | A→G | V24A (GTT→GCT) | sufC ← | Fe‑S cluster scaffold complex subunit SufC |
| RA | 1,767,223 | A→C | L488R (CTG→CGG) | ydiJ ← | putative FAD‑linked oxidoreductase |
| RA | 1,769,478 | (G)7→8 | coding (405/1113 nt) | ydiK → | putative transporter YdiK |
| RA | 1,770,656 | C→T | A14A (GCC→GCT) | ydiL → | DUF1870 domain‑containing protein YdiL |
| RA | 1,814,705 | T→G | I280S (ATT→AGT) | katE → | catalase II |
| RA | 1,815,057 | G→A | V397V (GTG→GTA) | katE → | catalase II |
| RA | 1,828,768 | A→G | S323P (TCT→CCT) | astD ← | aldehyde dehydrogenase |
| RA | 1,842,177 | T→G | intergenic (‑42/‑194) | ynjH ← / → gdhA | DUF1496 domain‑containing protein YnjH/glutamate dehydrogenase |
| RA | 1,853,832 | T→C | S50G (AGC→GGC) | ydjE ← | putative transporter YdjE |
| RA | 1,865,059 | T→C | Y193C (TAC→TGC) | yeaE ← | methylglyoxal reductase YeaE |
| RA | 1,873,384 | A→G | K448K (AAA→AAG) | dgcJ → | putative diguanylate cyclase DgcJ |
| RA | 1,878,841 | (T)6→5 | coding (69/99 nt) | yoaK → | putative membrane protein YoaK |
| JC JC | 1,879,829 | Δ1 bp :: IS186 (–) +6 bp :: Δ1 bp | coding (115‑120/360 nt) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| RA | 1,887,685 | T→C | T103A (ACG→GCG) | rnd ← | RNase D |
| RA | 1,894,366 | T→C | R78R (CGT→CGC) | yoaC → | DUF1889 domain‑containing protein YoaC |
| RA | 1,928,390 | T→C | R150R (CGA→CGG) | ptrB ← | oligopeptidase B |
| RA | 1,942,858 | A→C | K66T (AAA→ACA) | znuC → | Zn(2(+)) ABC transporter ATP binding subunit |
| RA | 1,945,078 | C→T | K93K (AAG→AAA) | ruvB ← | Holliday junction branch migration complex subunit RuvB |
| RA | 1,954,604 | A→G | F802L (TTT→CTT) | torZ ← | trimethylamine N‑oxide reductase 2 |
| RA | 1,968,611 | G→T | L252I (CTT→ATT) | cheR ← | chemotaxis protein methyltransferase |
| MC JC | 1,978,503 | Δ776 bp | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 1,987,434 | A→G | intergenic (+6/+73) | ftnB → / ← yecJ | putative ferritin‑like protein/DUF2766 domain‑containing protein YecJ |
| RA | 1,999,707 | C→A | A227S (GCG→TCG) | tcyJ ← | cystine ABC transporter periplasmic binding protein |
| RA | 2,001,157 | G→A | G211G (GGC→GGT) | fliA ← | RNA polymerase, sigma 28 (sigma F) factor |
| RA | 2,003,791 | (A)8→7 | intergenic (‑185/‑81) | fliC ← / → fliD | flagellar filament structural protein/flagellar filament capping protein |
| RA | 2,031,817 | T→C | E167E (GAA→GAG) | dcm ← | DNA‑cytosine methyltransferase |
| RA | 2,066,253 | A→G | intergenic (‑489/+52) | cobU ← / ← insH‑6 | cobinamide‑P guanylyltransferase/cobinamide kinase/CP4‑44 prophage; IS5 transposase and trans‑activator |
| RA | 2,090,243 | A→C | S18R (AGT→CGT) | hisG → | ATP phosphoribosyltransferase |
| RA | 2,110,387 | T→C | G211G (GGA→GGG) | rfbA ← | dTDP‑glucose pyrophosphorylase |
| RA | 2,114,146 | T→C | N61S (AAC→AGC) | galF ← | UTP:glucose‑1‑phosphate uridylyltransferase, low activity |
| RA | 2,139,083 | C→T | A394A (GCC→GCT) | yegH → | inner membrane protein YegH |
| RA | 2,152,194 | A→G | R93R (CGT→CGC) | pphC ← | protein‑serine/threonine phosphatase PphC |
| RA | 2,172,654 | C→T | D74N (GAT→AAT) | gatD ← | galactitol‑1‑phosphate 5‑dehydrogenase |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,194,757 | A→T | D153V (GAT→GTT) | metG → | methionine‑‑tRNA ligase |
| RA | 2,201,704 | A→G | S476G (AGC→GGC) | yehI → | DUF4132 domain‑containing protein YehI |
| RA | 2,227,340 | (C)6→7 | pseudogene (1419/1436 nt) | mdtQ ← | putative multidrug resistance outer membrane protein MdtQ |
| RA | 2,229,870 | T→C | K172K (AAA→AAG) | dusC ← | tRNA‑dihydrouridine(16) synthase |
| RA | 2,268,972 | A→G | Y40C (TAT→TGT) | lpxT → | Kdo2‑lipid A phosphotransferase |
| RA | 2,277,598 | T→C | R433R (CGT→CGC) | yejF → | putative oligopeptide ABC transporter ATP binding subunit |
| RA | 2,337,723 | A→C | G566G (GGT→GGG) | gyrA ← | DNA gyrase subunit A |
| RA | 2,371,433 | (G)5→4 | coding (526/1653 nt) | arnT → | lipid IVA 4‑amino‑4‑deoxy‑L‑arabinosyltransferase |
| RA | 2,389,175 | Δ1 bp | coding (60/849 nt) | yfbP → | uncharacterized protein YfbP |
| RA | 2,433,011 | A→G | intergenic (‑69/+1) | folC ← / ← accD | bifunctional folylpolyglutamate synthetase/dihydrofolate synthetase/acetyl‑CoA carboxyltransferase subunit beta |
| RA | 2,446,579 | T→C | T299A (ACC→GCC) | aroC ← | chorismate synthase |
| RA | 2,454,187 | A→C | pseudogene (815/2646 nt) | yfcU ← | putative outer membrane usher protein YfcU |
| RA | 2,462,880 | T→C | intergenic (+234/‑132) | fadL → / → yfdF | long‑chain fatty acid outer membrane channel/bacteriophage T2 receptor/protein YfdF |
| RA | 2,527,823 | T→C | V293A (GTG→GCG) | yfeH → | putative solute:Na(+) symporter |
| RA | 2,559,952 | G→A | R365R (AGG→AGA) | intZ → | CPZ‑55 prophage; putative phage integrase IntZ |
| RA | 2,564,783 | T→C | G87G (GGT→GGC) | yffS → | CPZ‑55 prophage; uncharacterized protein YffS |
| RA | 2,606,743 | G→A | G161D (GGC→GAC) | hyfE → | hydrogenase 4 component E |
| RA | 2,626,828 | T→C | Y704C (TAC→TGC) | pdeF ← | cyclic di‑GMP phosphodiesterase PdeF |
| RA | 2,635,685 | A→G | L44L (TTA→CTA) | yfgJ ← | zinc ribbon domain‑containing protein YfgJ |
| RA | 2,669,362 | T→C | S111P (TCT→CCT) | hcaE → | putative 3‑phenylpropionate/cinnamate dioxygenase subunit alpha |
| RA | 2,671,917 | Δ1 bp | coding (693/813 nt) | hcaB → | 2,3‑dihydroxy‑2,3‑dihydrophenylpropionate dehydrogenase |
| RA | 2,721,756 | G→A | G602S (GGT→AGT) | patZ → | peptidyl‑lysine acetyltransferase |
| RA | 2,752,917 | C→G | L375V (CTT→GTT) | recN → | DNA repair protein RecN |
| RA | 2,753,762 | A→C | Q53P (CAA→CCA) | bamE → | outer membrane protein assembly factor BamE |
| RA | 2,762,713 | T→C | T276T (ACA→ACG) | abpB ← | CP4‑57 prophage; putative helicase YfjK |
| RA | 2,765,794 | (C)7→8 | intergenic (‑18/‑124) | yfjM ← / → rnlA | CP4‑57 prophage; protein YfjM/CP4‑57 prophage; RNase LS, toxin of the RnlAB toxin‑antitoxin system |
| RA | 2,775,273 | T→C | intergenic (+252/‑272) | yfjW → / → ypjI | CP4‑57 prophage; uncharacterized protein YfjW/putative UPF0401 protein YpjI |
| RA | 2,810,164 | C→T | A183V (GCA→GTA) | ygaZ → | L‑valine exporter subunit YgaZ |
| RA | 2,811,134 | A→G | H122R (CAC→CGC) | mprA → | DNA‑binding transcriptional repressor MprA |
| RA | 2,812,082 | T→C | I219T (ATC→ACC) | emrA → | multidrug efflux pump membrane fusion protein EmrA |
| RA | 2,819,780 | T→C | K744K (AAA→AAG) | alaS ← | alanine‑‑tRNA ligase/DNA‑binding transcriptional repressor |
| RA | 2,825,817 | C→A | intergenic (‑241/‑15) | mltB ← / → srlA | membrane‑bound lytic murein transglycosylase B/sorbitol‑specific PTS enzyme IIC2 component |
| RA | 2,829,365 | G→A | V107I (GTT→ATT) | srlR → | DNA‑binding transcriptional repressor SrlR |
| RA | 2,831,712 | C→T | G193D (GGC→GAC) | norR ← | DNA‑binding transcriptional dual regulator NorR |
| RA | 2,842,850 | T→G | D65A (GAT→GCT) | hycI ← | hydrogenase 3 maturation protease |
| MC JC | 2,857,096 | Δ2,538 bp | coding (4‑2541/2562 nt) | mutS → | DNA mismatch repair protein MutS |
| RA | 2,896,787 | T→C | S362G (AGT→GGT) | ygcS ← | putative transporter YgcS |
| RA | 2,905,219 | (C)6→8 | coding (200/672 nt) | queE ← | putative 7‑carboxy‑7‑deazaguanine synthase QueE |
| RA | 2,905,733 | T→G | F8C (TTC→TGC) | ygcG → | protein YgcG |
| RA | 2,918,126 | G→A | G420G (GGC→GGT) | gudD ← | D‑glucarate dehydratase |
| RA | 2,922,549 | T→G | T146P (ACG→CCG) | yqcA ← | putative flavodoxin YqcA |
| RA | 2,942,466 | T→C | Q34Q (CAA→CAG) | gcvA ← | DNA‑binding transcriptional dual regulator GcvA |
| RA | 2,949,993 | (T)5→6 | coding (752/1332 nt) | argA → | N‑acetylglutamate synthase |
| RA | 2,955,714 | T→C | Y97C (TAC→TGC) | recB ← | exodeoxyribonuclease V subunit RecB |
| RA | 2,995,816 | T→C | pseudogene (205/707 nt) | ygeN ← | putative type III secretion system protein |
| RA | 3,008,544 | C→T | G345G (GGC→GGT) | ygeX → | 2,3‑diaminopropionate ammonia‑lyase |
| RA | 3,009,043 | G→A | D94N (GAC→AAC) | ygeY → | putative peptidase YgeY |
| RA | 3,025,943 | A→C | I60L (ATT→CTT) | guaD → | guanine deaminase |
| RA | 3,038,560 | A→G | L88S (TTA→TCA) | dsbC ← | protein disulfide isomerase DsbC |
| RA | 3,054,895 | G→A | P184S (CCA→TCA) | ygfB ← | UPF0149 family protein YgfB |
| RA | 3,068,157 | T→C | intergenic (‑77/+16) | yggE ← / ← argO | uncharacterized protein YggE/L‑arginine exporter |
| RA | 3,096,766 | T→C | V29A (GTG→GCG) | rdgB → | dITP/XTP pyrophosphatase |
| RA | 3,101,039 | (C)7→9 | coding (585/720 nt) | yggN ← | putative EcfF |
| RA | 3,103,600 | +A | coding (588/1053 nt) | mutY → | adenine DNA glycosylase |
| RA | 3,104,918 | T→C | R162R (CGT→CGC) | mltC → | membrane‑bound lytic murein transglycosylase C |
| RA | 3,109,283 | T→C | intergenic (‑128/‑270) | speC ← / → yqgA | ornithine decarboxylase, biosynthetic/DUF554 domain‑containing protein YqgA |
| RA | 3,119,228 | A→G | intergenic (‑116/+369) | yghJ ← / ← glcA | putative lipoprotein YghJ/glycolate/lactate:H(+) symporter GlcA |
| RA | 3,142,721 | T→C | Y90C (TAC→TGC) | hybC ← | hydrogenase 2 large subunit |
| RA | 3,143,320 | T→C | D282G (GAC→GGC) | hybB ← | hydrogenase 2 membrane subunit |
| RA | 3,156,480 | T→C | L376L (TTG→CTG) | yqhD → | NADPH‑dependent aldehyde reductase YqhD |
| RA | 3,193,178 | A→C | V105V (GTA→GTC) | yqiK → | protein YqiK |
| RA | 3,200,134 | T→C | T278A (ACT→GCT) | ygiF ← | inorganic triphosphatase |
| RA | 3,216,481 | (G)6→5 | coding (11/765 nt) | nfeF ← | NADPH‑dependent ferric chelate reductase |
| RA | 3,224,676 | C→A | R682S (CGC→AGC) | ebgA → | evolved beta‑D‑galactosidase subunit alpha |
| RA | 3,240,984 | (G)7→9 | coding (1041/1245 nt) | sstT → | serine/threonine:Na(+) symporter |
| RA | 3,260,758 | T→C | D554G (GAC→GGC) | tdcE ← | 2‑ketobutyrate formate‑lyase/pyruvate formate‑lyase 4 |
| RA | 3,299,534 | T→G | N128H (AAC→CAC) | yhbP ← | putative FMN binding protein YhbP |
| RA | 3,304,813 | (C)7→6 | coding (1005/1245 nt) | mtr ← | tryptophan:H(+) symporter Mtr |
| RA | 3,309,390 | A→G | G593G (GGT→GGC) | pnp ← | polynucleotide phosphorylase |
| RA | 3,323,624 | G→A | S149S (AGC→AGT) | glmM ← | phosphoglucosamine mutase |
| RA | 3,332,241 | G→A | V165V (GTC→GTT) | yhbE ← | inner membrane protein YhbE |
| RA | 3,344,248 | T→C | V102A (GTA→GCA) | lptB → | lipopolysaccharide transport system ATP binding protein |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,356,708 | T→G | F662V (TTC→GTC) | gltB → | glutamate synthase subunit GltB |
| RA | 3,372,139 | T→G | S146R (AGT→CGT) | nanT ← | N‑acetylneuraminate:H(+) symporter |
| RA | 3,379,381 | T→C | N206S (AAC→AGC) | zapE ← | cell division factor ZapE with ATPase activity |
| RA | 3,388,726 | A→G | V134A (GTT→GCT) | aaeA ← | aromatic carboxylic acid efflux pump membrane fusion protein |
| RA | 3,411,752 | G→A | V34I (GTC→ATC) | yhdJ → | DNA adenine methyltransferase |
| RA | 3,451,194 | G→A | G57G (GGC→GGT) | rplB ← | 50S ribosomal subunit protein L2 |
| RA | 3,480,828 | T→C | T112A (ACC→GCC) | kefG ← | protein required for KefB activity |
| RA | 3,519,256 | T→C | intergenic (‑192/+209) | aroK ← / ← hofQ | shikimate kinase 1/DNA utilization protein HofQ |
| RA | 3,522,408 | T→C | D115G (GAC→GGC) | hofM ← | DNA utilization protein HofM |
| RA | 3,540,301 | G→A | D47N (GAC→AAC) | feoA → | ferrous iron transport protein A |
| RA | 3,544,959 | T→C | C26C (TGT→TGC) | yhgH → | DNA utilization protein YhgH |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,567,257 | T→C | L259L (TTA→TTG) | glgA ← | glycogen synthase |
| RA | 3,571,824 | A→C | F560C (TTC→TGC) | glgB ← | 1,4‑alpha‑glucan branching enzyme |
| RA | 3,577,903 | T→C | H275R (CAC→CGC) | gntR ← | DNA‑binding transcriptional repressor GntR |
| RA | 3,579,267 | T→C | T127A (ACG→GCG) | yhhW ← | quercetin 2,3‑dioxygenase |
| RA | 3,582,299 | T→C | F146S (TTC→TCC) | yhhZ → | putative endonuclease YhhZ |
| RA | 3,590,928 | A→G | intergenic (‑17/+81) | ugpA ← / ← ugpB | sn‑glycerol 3‑phosphate ABC transporter membrane subunit UgpA/sn‑glycerol 3‑phosphate ABC transporter periplasmic binding protein |
| RA | 3,608,682 | T→C | intergenic (+33/+69) | zntA → / ← tusA | Zn(2(+))/Cd(2(+))/Pb(2(+)) exporting P‑type ATPase/sulfur transfer protein TusA |
| RA | 3,645,004 | T→C | D60G (GAC→GGC) | prlC ← | oligopeptidase A |
| RA | 3,723,278 | A→C | W374G (TGG→GGG) | glyS ← | glycine‑‑tRNA ligase subunit beta |
| RA | 3,749,644 | G→A | W138* (TGG→TAG) | sgbU → | putative L‑xylulose 5‑phosphate 3‑epimerase |
| RA | 3,757,772 | A→C | L19W (TTG→TGG) | yiaY ← | L‑threonine dehydrogenase |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,838,052 | T→C | I367T (ATC→ACC) | setC → | putative arabinose exporter |
| RA | 3,842,237 | C→A | E56* (GAA→TAA) | yicN ← | conserved protein YicN |
| RA | 3,846,324 | A→G | S282P (TCA→CCA) | uhpT ← | hexose‑6‑phosphate:phosphate antiporter |
| RA | 3,860,630 | (C)5→4 | coding (348/894 nt) | yidL → | putative DNA‑binding transcriptional regulator YidL |
| RA | 3,866,463 | A→G | intergenic (‑190/+6) | yidE ← / ← ibpB | putative transport protein YidE/small heat shock protein IbpB |
| RA | 3,884,194 | A→C | intergenic (+88/‑142) | ysdD → / → rpmH | protein YsdD/50S ribosomal subunit protein L34 |
| RA | 3,920,598 | T→C | E97E (GAA→GAG) | atpF ← | ATP synthase Fo complex subunit b |
| RA | 3,920,613 | A→C | A92A (GCT→GCG) | atpF ← | ATP synthase Fo complex subunit b |
| RA | 4,008,263 | C→T | S169S (AGC→AGT) | rhtC → | L‑threonine exporter |
| RA | 4,042,023 | G→C | intergenic (‑24/‑46) | mobA ← / → yihD | molybdenum cofactor guanylyltransferase/conserved protein YihD |
| RA | 4,060,280 | (T)9→8 | intergenic (+50/‑167) | bipA → / → yihL | ribosome‑dependent GTPase, ribosome assembly factor/putative transcriptional regulator YihL |
| RA | 4,060,875 | A→G | E143E (GAA→GAG) | yihL → | putative transcriptional regulator YihL |
| RA | 4,073,698 | A→C | intergenic (‑127/‑41) | yihU ← / → yihV | 3‑sulfolactaldehyde reductase/6‑deoxy‑6‑sulfofructose kinase |
| RA | 4,090,640 | C→T | V96I (GTA→ATA) | frvX ← | peptidase M42 family protein |
| RA | 4,101,728 | (G)7→8 | coding (39/984 nt) | kdgT → | 2‑dehydro‑3‑deoxy‑D‑gluconate:H(+) symporter |
| RA | 4,103,311 | T→C | S164P (TCC→CCC) | yiiM → | 2‑amino‑6‑N‑hydroxylaminopurine resistance protein |
| RA | 4,177,658 | A→G | T101A (ACC→GCC) | secE → | Sec translocon subunit SecE |
| RA | 4,205,209 | A→C | D241E (GAT→GAG) | purD ← | phosphoribosylamine‑‑glycine ligase |
| RA | 4,262,370 | G→A | E234E (GAG→GAA) | dusA → | tRNA‑dihydrouridine synthase A |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,300,748 | A→G | S95P (TCC→CCC) | mdtP ← | putative multidrug efflux pump outer membrane channel |
| RA | 4,329,752 | A→G | E131E (GAA→GAG) | yjcZ → | uncharacterized protein YjcZ |
| RA | 4,338,406 | A→G | S706P (TCT→CCT) | adiA ← | arginine decarboxylase, degradative |
| RA | 4,355,554 | A→G | S286S (AGT→AGC) | dtpC ← | dipeptide/tripeptide:H(+) symporter DtpC |
| RA | 4,359,871 | G→A | A54V (GCG→GTG) | cadB ← | lysine:cadaverine antiporter |
| RA | 4,362,343 | A→G | intergenic (‑409/+208) | cadC ← / ← pheU | DNA‑binding transcriptional activator CadC/tRNA‑Phe |
| RA | 4,389,226 | G→A | L49F (CTC→TTC) | mscM ← | miniconductance mechanosensitive channel MscM |
| RA | 4,397,834 | G→A | V141V (GTG→GTA) | mutL → | DNA mismatch repair protein MutL |
| RA | 4,404,529 | A→G | G48G (GGA→GGG) | yjeT → | DUF2065 domain‑containing protein YjeT |
| RA | 4,413,295 | A→G | S90G (AGC→GGC) | yjfC → | putative acid‑‑amine ligase YjfC |
| RA | 4,418,632 | A→G | Y332H (TAC→CAC) | ulaG ← | L‑ascorbate‑6‑phosphate lactonase |
| RA | 4,445,549 | A→G | T480A (ACC→GCC) | tamB → | translocation and assembly module subunit TamB |
| RA | 4,474,725 | C→T | intergenic (+8/‑137) | bdcR → / → tabA | putative transcriptional regulator BdcR/DUF386 domain‑containing toxin‑antitoxin biofilm protein TabA |
| RA | 4,480,876 | T→G | F383V (TTC→GTC) | yjgN → | conserved inner membrane protein YjgN |
| RA | 4,488,579 | (C)7→8 | coding (1485/1503 nt) | yjgR ← | DUF853 domain‑containing protein YjgR |
| RA | 4,516,115 | C→T | R188H (CGC→CAC) | fecA ← | ferric citrate outer membrane transporter |
| RA | 4,525,117 | A→G | N229N (AAT→AAC) | yjhI ← | KpLE2 phage‑like element; putative DNA‑binding transcriptional regulator YjhI |
| RA | 4,540,613 | A→G | intergenic (‑1112/‑344) | nanC ← / → fimB | N‑acetylneuraminic acid outer membrane channel/regulator for fimA |
| RA | 4,551,114 | (C)5→6 | coding (183/1344 nt) | gntP ← | fructuronate transporter |
| RA | 4,563,850 | T→C | M26V (ATG→GTG) | ytiA ← | uncharacterized protein YtiA |
| RA | 4,606,094 | (G)8→9 | noncoding (72/87 nt) | leuV ← | tRNA‑Leu |
| RA | 4,606,215 | (G)8→9 | noncoding (72/87 nt) | leuP ← | tRNA‑Leu |
| RA | 4,608,076 | A→G | T92A (ACT→GCT) | holD → | DNA polymerase III subunit psi |
| RA | 4,621,161 | C→T | G93G (GGC→GGT) | deoD → | purine nucleoside phosphorylase |
| RA | 4,627,920 | C→A | T202T (ACC→ACA) | nadR → | DNA‑binding transcriptional repressor/NMN adenylyltransferase NadR |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 433032 | 433101 | 70 | 7 [4] | [2] 6 | nrdR | NrdR transcriptional repressor |
| * | * | ÷ | NC_000913 | 730239–730416 | 730416 | 1–178 | 6 [4] | [5] 9 | rhsC | rhs element protein RhsC |
| * | * | ÷ | NC_000913 | 730553–730565 | 731113–731058 | 494–561 | 10 [1] | [4] 6 | rhsC | rhs element protein RhsC |
| * | * | ÷ | NC_000913 | 1432756–1433198 | 1434232–1434077 | 880–1477 | 7 [3] | [5] 6 | [tfaR]–ynaE | [tfaR],pinR,ynaE |
| * | * | ÷ | NC_000913 | 3423789–3424234 | 3424531–3424239 | 6–743 | 6 [5] | [5] 6 | [rrlD] | [rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 38 (1.110) | 32/256 | 0.1 | 100% | intergenic (+253/‑33) | ychE/insH21 | putative inner membrane protein/IS5 transposase and trans‑activator |
| ? | NC_000913 | 1300698 = | 0 (0.000) | intergenic (+151/‑484) | insH21/oppA | IS5 transposase and trans‑activator/oligopeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | 3363001 = | 62 (1.760) | 83 (2.370) | 44/262 | 0.0 | 73.0% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 0 (0.000) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 33 (0.940) | 29/264 | 0.2 | 97.1% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 1 (0.030) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||