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 | 45,294 | A→G | N372S (AAC→AGC) | fixC → | putative oxidoreductase FixC |
| RA | 55,528 | A→G | Y528H (TAC→CAC) | lptD ← | lipopolysaccharide assembly protein LptD |
| RA | 110,478 | A→G | T734A (ACG→GCG) | secA → | protein translocation ATPase |
| RA | 114,800 | T→C | N309D (AAC→GAC) | hofC ← | inner membrane protein HofC |
| RA | 158,295 | T→G | T278P (ACC→CCC) | pcnB ← | poly(A) polymerase I |
| RA | 169,707 | A→G | T742A (ACC→GCC) | fhuA → | ferrichrome outer membrane transporter/phage receptor |
| RA | 170,273 | A→G | S166G (AGC→GGC) | fhuC → | iron(III) hydroxamate ABC transporter ATP binding subunit |
| RA | 187,736 | A→G | G305G (GGT→GGC) | glnD ← | PII uridylyltransferase/uridylyl removing enzyme |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 263,502 | A→G | G56G (GGT→GGC) | ykfI ← | CP4‑6 prophage; toxin of the YkfI‑YafW toxin‑antitoxin system |
| RA | 303,093 | (G)6→7 | coding (103/615 nt) | yagU → | inner membrane protein that contributes to acid resistance |
| RA | 321,564 | (G)7→8 | intergenic (+483/‑44) | rclR → / → ykgE | DNA‑binding transcriptional activator RclR/putative lactate utilization oxidoreductase YkgE |
| RA | 374,141 | A→G | T92A (ACT→GCT) | mhpE → | 4‑hydroxy‑2‑oxovalerate aldolase |
| RA | 380,022 | (G)10→9 | intergenic (‑141/+47) | frmR ← / ← yaiO | DNA‑binding transcriptional repressor FrmR/outer membrane protein YaiO |
| RA | 395,146 | A→G | V381A (GTT→GCT) | ampH ← | peptidoglycan DD‑carboxypeptidase/peptidoglycan DD‑endopeptidase |
| RA | 416,750 | A→G | V68A (GTC→GCC) | sbcD ← | ATP dependent, structure specific DNA nuclease ‑ SbcD subunit |
| RA | 425,420 | T→C | V137A (GTG→GCG) | queA → | tRNA preQ1(34) S‑adenosylmethionine ribosyltransferase‑isomerase |
| RA | 427,546 | A→G | D87G (GAC→GGC) | yajC → | Sec translocon accessory complex subunit YajC |
| RA | 451,331 | T→C | T94A (ACG→GCG) | cyoA ← | cytochrome bo3 ubiquinol oxidase subunit 2 |
| RA | 477,402 | C→T | A406T (GCC→ACC) | pdeB ← | c‑di‑GMP phosphodiesterase PdeB |
| RA | 484,885 | T→C | S245S (TCA→TCG) | acrA ← | multidrug efflux pump membrane fusion lipoprotein AcrA |
| RA | 503,672 | T→C | E342G (GAG→GGG) | fsr ← | fosmidomycin efflux pump |
| RA | 506,730 | (G)5→4 | coding (353/480 nt) | ybaK ← | Cys‑tRNA(Pro) and Cys‑tRNA(Cys) deacylase |
| RA | 527,577 | T→C | intergenic (+36/‑4) | rhsD → / → ybbC | protein RhsD/PF15631 family protein YbbC |
| RA | 539,690 | C→T | P182S (CCG→TCG) | allB → | allantoinase |
| RA | 544,463 | A→G | V277A (GTG→GCG) | allC ← | allantoate amidohydrolase |
| RA | 563,450 | A→G | T41A (ACC→GCC) | sfmF → | putative fimbrial protein SfmF |
| RA | 564,661 | C→A | intergenic (‑181/‑62) | fimZ ← / → argU | putative LuxR family transcriptional regulator FimZ/tRNA‑Arg |
| RA | 571,587 | A→G | E45G (GAG→GGG) | ybcM → | DLP12 prophage; putative DNA‑binding transcriptional regulator |
| RA | 607,626 | T→C | intergenic (‑243/‑108) | ybdK ← / → sokE | carboxylate‑amine ligase/small RNA SokE |
| RA | 614,362 | T→C | V69A (GTC→GCC) | entF → | apo‑serine activating enzyme |
| RA | 629,579 | T→C | S94P (TCT→CCT) | entH → | proofreading thioesterase in enterobactin biosynthesis |
| RA | 682,304 | A→G | L364L (TTG→CTG) | hscC ← | chaperone protein HscC |
| RA | 706,889 | A→G | Y266C (TAC→TGC) | glnS → | glutamine‑‑tRNA ligase |
| RA | 723,528 | (T)8→7 | coding (887/2685 nt) | kdpD ← | sensory histidine kinase KdpD |
| RA | 731,859 | T→C | H759H (CAT→CAC) | rhsC → | rhs element protein RhsC |
| RA | 731,869 | A→G | N763E (AAT→GAA) | rhsC → | rhs element protein RhsC |
| RA | 731,871 | T→A | N763E (AAT→GAA) | rhsC → | rhs element protein RhsC |
| RA | 731,873 | A→C | E764A (GAA→GCA) | rhsC → | rhs element protein RhsC |
| RA | 731,913 | A→G | A777A (GCA→GCG) | rhsC → | rhs element protein RhsC |
| RA | 731,919 | A→G | G779G (GGA→GGG) | rhsC → | rhs element protein RhsC |
| RA | 735,023 | C→G | pseudogene (804/1434 nt) | ybfO → | conserved protein, rhs‑like YbfO |
| RA | 766,957 | (G)6→7 | coding (974/1977 nt) | mngA → | 2‑O‑alpha‑mannosyl‑D‑glycerate specific PTS enzyme II |
| RA | 787,470 | A→G | G42G (GGT→GGC) | gpmA ← | 2,3‑bisphosphoglycerate‑dependent phosphoglycerate mutase |
| RA | 796,249 | G→A | G130R (GGG→AGG) | modB → | molybdate ABC transporter membrane subunit |
| RA | 830,264 | A→G | L127P (CTC→CCC) | cecR ← | DNA‑binding transcriptional dual regulator CecR |
| RA | 837,737 | A→G | G63G (GGT→GGC) | ybiJ ← | DUF1471 domain‑containing protein YbiJ |
| RA | 855,968 | A→G | L2L (TTA→TTG) | ybiT → | ABC transporter ATP‑binding protein YbiT |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 900,275 | T→C | T101A (ACC→GCC) | artJ ← | L‑arginine ABC transporter periplasmic binding protein |
| RA | 932,340 | (A)8→7 | intergenic (‑290/‑255) | trxB ← / → lrp | thioredoxin reductase/DNA‑binding transcriptional dual regulator Lrp |
| RA | 933,443 | A→G | T74A (ACG→GCG) | ftsK → | cell division DNA translocase FtsK |
| RA | 935,434 | A→G | E737E (GAA→GAG) | ftsK → | cell division DNA translocase FtsK |
| RA | 939,183 | A→G | N397S (AAC→AGC) | rarA → | recombination factor |
| RA | 954,097 | C→T | G124S (GGC→AGC) | focA ← | formate channel FocA |
| RA | 987,008 | (T)8→7 | intergenic (‑26/+577) | ompF ← / ← asnS | outer membrane porin F/asparagine‑‑tRNA ligase |
| RA | 1,003,357 | Δ1 bp | coding (469/543 nt) | ycbU → | putative fimbrial protein YcbU |
| RA | 1,010,898 | C→T | A312V (GCC→GTC) | uup → | ATP‑binding protein with possible role in replication |
| RA | 1,016,118 | A→G | V118A (GTA→GCA) | fabA ← | beta‑hydroxyacyl‑acyl carrier protein dehydratase/isomerase |
| RA | 1,019,811 | A→G | R81R (CGT→CGC) | ompA ← | outer membrane porin A |
| RA | 1,056,094 | A→G | Y29H (TAC→CAC) | torS ← | sensory histidine kinase TorS |
| RA | 1,143,140 | T→C | T410A (ACT→GCT) | rne ← | ribonuclease E |
| RA | 1,148,063 | G→A | G148E (GGG→GAG) | plsX → | putative phosphate acyltransferase |
| RA | 1,181,071 | T→C | D66G (GAC→GGC) | ycfZ ← | putative inner membrane 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 | 1,212,088 | (C)8→9 | intergenic (‑85/+172) | iraM ← / ← ymgK | anti‑adaptor protein IraM, inhibitor of sigma(S) proteolysis/protein YmgK |
| RA | 1,213,369 | A→G | W231R (TGG→CGG) | bluR ← | DNA‑binding transcriptional repressor BluR |
| RA | 1,220,971 | G→A | pseudogene (1371/2648 nt) | ycgH → | putative transporter component, N‑terminal fragment |
| RA | 1,245,412 | (A)7→8 | coding (253/441 nt) | ycgY → | uncharacterized protein YcgY |
| RA | 1,249,873 | T→C | S322S (TCA→TCG) | dhaK ← | dihydroxyacetone kinase subunit K |
| RA | 1,264,631 | C→T | I306I (ATC→ATT) | hemA → | glutamyl‑tRNA reductase |
| RA | 1,272,154 | C→T | S12S (AGC→AGT) | chaB → | putative cation transport regulator ChaB |
| RA | 1,280,952 | T→C | D363D (GAT→GAC) | narG → | nitrate reductase A subunit alpha |
| RA | 1,295,063 | Δ1 bp | pseudogene (260/897 nt) | insZ ← | putative transposase InsZ |
| RA | 1,295,065 | C→T | pseudogene (258/897 nt) | insZ ← | putative transposase InsZ |
| RA | 1,305,170 | A→G | K139K (AAA→AAG) | oppD → | murein tripeptide ABC transporter/oligopeptide ABC transporter ATP binding subunit OppD |
| JC | 1,318,571 | (C)6→9 | coding (1218/1362 nt) | trpC ← | fused indole‑3‑glycerol phosphate synthase/phosphoribosylanthranilate isomerase |
| RA | 1,351,196 | (G)7→6 | intergenic (‑157/+211) | fabI ← / ← ycjD | enoyl‑[acyl‑carrier‑protein] reductase/DUF559 domain‑containing protein YcjD |
| RA | 1,391,095 | T→C | A253A (GCA→GCG) | ycjY ← | putative hydrolase YcjY |
| RA | 1,414,119 | C→T | L225L (CTG→CTA) | recT ← | Rac prophage; recombinase, DNA renaturation |
| RA | 1,415,222 | A→G | V722A (GTT→GCT) | recE ← | Rac prophage; exonuclease VIII, ds DNA exonuclease, 5' ‑‑> 3' specific |
| RA | 1,428,923 | G→A | pseudogene (128/189 nt) | lomR → | Rac prophage; protein LomR_1 |
| RA | 1,439,190 | A→G | V532A (GTG→GCG) | ydbK ← | putative pyruvate‑flavodoxin oxidoreductase |
| RA | 1,451,628 | A→G | V672A (GTG→GCG) | paaZ ← | oxepin‑CoA hydrolase/3‑oxo‑5,6‑dehydrosuberyl‑CoA semialdehyde dehydrogenase |
| RA | 1,458,575 | T→C | C104C (TGT→TGC) | paaG → | putative ring 1,2‑epoxyphenylacetyl‑CoA isomerase (oxepin‑CoA forming) |
| RA | 1,472,600 | T→C | pseudogene (2082/3495 nt) | ydbA → | putative outer membrane protein, N‑terminal fragment |
| RA | 1,509,335 | T→C | V17A (GTA→GCA) | hicA → | toxin of the HicA‑HicB toxin‑antitoxin system |
| RA | 1,535,998 | A→G | V207A (GTG→GCG) | narV ← | nitrate reductase Z subunit gamma |
| RA | 1,541,351 | C→T | E414K (GAA→AAA) | narZ ← | nitrate reductase Z subunit alpha |
| RA | 1,545,775 | T→C | N85S (AAC→AGC) | yddL ← | putative uncharacterized protein YddL |
| RA | 1,569,819 | A→G | V224A (GTC→GCC) | gadC ← | L‑glutamate:4‑aminobutyrate antiporter |
| RA | 1,584,611 | T→C | T626A (ACC→GCC) | ydeP ← | putative oxidoreductase YdeP |
| RA | 1,586,334 | A→G | G51G (GGT→GGC) | ydeP ← | putative oxidoreductase YdeP |
| RA | 1,592,389 | T→C | K18K (AAA→AAG) | hipB ← | antitoxin/DNA‑binding transcriptional repressor HipB |
| RA | 1,594,132 | (C)8→7 | pseudogene (3955/5422 nt) | yneO ← | AIDA‑I family autotransporter YneO |
| RA | 1,619,930 | A→G | L119L (TTA→TTG) | marA → | DNA‑binding transcriptional dual regulator MarA |
| RA | 1,634,642 | C→T | G82S (GGC→AGC) | tfaQ ← | Qin prophage; putative tail fiber assembly protein TfaQ |
| RA | 1,646,935 | A→G | intergenic (+198/+239) | flxA → / ← ydfW | Qin prophage; protein FlxA/Qin prophage; uncharacterized protein YdfW |
| RA | 1,661,045 | A→G | T164A (ACA→GCA) | ynfF → | putative selenate reductase YnfF |
| RA | 1,662,588 | A→G | D678G (GAT→GGT) | ynfF → | putative selenate reductase YnfF |
| RA | 1,685,542 | (C)6→5 | coding (1047/1404 nt) | fumC ← | fumarase C |
| RA | 1,692,183 | (C)5→4 | coding (669/1266 nt) | uidC ← | outer membrane porin family protein |
| RA | 1,705,392 | G→A | G48D (GGC→GAC) | ydgK → | conserved inner membrane protein YdgK |
| RA | 1,717,008 | A→G | V72A (GTA→GCA) | tyrS ← | tyrosine‑‑tRNA ligase |
| RA | 1,718,882 | T→C | T241A (ACC→GCC) | anmK ← | anhydro‑N‑acetylmuramic acid kinase |
| RA | 1,732,427 | T→C | V1114A (GTA→GCA) | lhr → | putative ATP‑dependent helicase Lhr |
| RA | 1,742,580 | (C)5→6 | intergenic (+19/+21) | cfa → / ← ribC | cyclopropane fatty acyl phospholipid synthase/riboflavin synthase |
| RA | 1,752,975 | T→C | T286A (ACC→GCC) | ydhV ← | putative oxidoreductase |
| RA | 1,795,493 | C→T | K20K (AAG→AAA) | ihfA ← | integration host factor subunit alpha |
| RA | 1,847,303 | G→A | H236Y (CAC→TAC) | selD ← | selenide, water dikinase |
| RA | 1,852,912 | T→C | G356G (GGA→GGG) | ydjE ← | putative transporter YdjE |
| RA | 1,873,384 | A→G | K448K (AAA→AAG) | dgcJ → | putative diguanylate cyclase DgcJ |
| JC JC | 1,879,829 | Δ1 bp :: IS186 (–) +6 bp :: Δ1 bp | coding (115‑120/360 nt) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| RA | 1,882,567 | A→G | D219G (GAC→GGC) | dmlA → | D‑malate/3‑isopropylmalate dehydrogenase (decarboxylating) |
| RA | 1,906,322 | T→C | T247A (ACA→GCA) | rlmA ← | 23S rRNA m(1)G745 methyltransferase |
| RA | 1,921,384 | G→A | A388T (GCC→ACC) | rsmF → | 16S rRNA m(5)C1407 methyltransferase |
| RA | 1,933,049 | A→G | V519A (GTG→GCG) | edd ← | phosphogluconate dehydratase |
| RA | 1,947,931 | A→G | V74A (GTG→GCG) | yebC ← | putative transcriptional regulator YebC |
| RA | 1,949,210 | T→C | D438G (GAC→GGC) | aspS ← | aspartate‑‑tRNA ligase |
| MC JC | 1,978,503 | Δ776 bp | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 1,996,183 | T→C | N217S (AAC→AGC) | sdiA ← | DNA‑binding transcriptional dual regulator SdiA |
| RA | 2,019,197 | T→C | V271A (GTG→GCG) | fliK → | flagellar hook‑length control protein |
| RA | 2,024,716 | C→T | S36S (TCG→TCA) | dsrB ← | protein DsrB |
| RA | 2,104,882 | (A)9→8 | coding (203/591 nt) | wbbJ ← | putative acyl transferase |
| RA | 2,110,586 | C→T | R145H (CGC→CAC) | rfbA ← | dTDP‑glucose pyrophosphorylase |
| RA | 2,117,460 | T→C | E315E (GAA→GAG) | wcaK ← | putative colanic acid biosynthesis pyruvyl transferase |
| RA | 2,143,095 | (G)5→6 | intergenic (‑147/‑171) | udk ← / → dgcE | uridine/cytidine kinase/putative diguanylate cyclase DgcE |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,227,340 | (C)6→7 | pseudogene (1419/1436 nt) | mdtQ ← | putative multidrug resistance outer membrane protein MdtQ |
| RA | 2,231,507 | T→C | H163H (CAT→CAC) | yohK → | PF04712 family membrane protein YohK |
| RA | 2,275,075 | (T)6→5 | coding (897/1095 nt) | yejB → | putative oligopeptide ABC transporter membrane subunit YejB |
| RA | 2,321,433 | T→C | V464A (GTT→GCT) | atoS → | sensory histidine kinase AtoS |
| RA | 2,330,974 | G→A | pseudogene (3429/4605 nt) | yfaS ← | putative macroglobulin family protein, N‑terminal fragment |
| RA | 2,336,818 | A→G | V868A (GTT→GCT) | gyrA ← | DNA gyrase subunit A |
| RA | 2,342,105 | T→C | T689A (ACC→GCC) | yfaL ← | putative autotransporter adhesin YfaL |
| RA | 2,357,848 | A→G | pseudogene (33/186 nt) | ypaA → | protein YpaA |
| RA | 2,400,589 | T→C | T323A (ACG→GCG) | nuoF ← | NADH:quinone oxidoreductase subunit F |
| RA | 2,407,653 | A→G | E31E (GAA→GAG) | alaA → | glutamate‑‑pyruvate aminotransferase AlaA |
| RA | 2,421,167 | T→C | Y183H (TAT→CAT) | yfcG → | disulfide reductase |
| RA | 2,446,579 | T→C | T299A (ACC→GCC) | aroC ← | chorismate synthase |
| RA | 2,462,889 | (C)9→8 | intergenic (+243/‑123) | fadL → / → yfdF | long‑chain fatty acid outer membrane channel/bacteriophage T2 receptor/protein YfdF |
| RA | 2,462,950 | (T)6→5 | intergenic (+304/‑62) | fadL → / → yfdF | long‑chain fatty acid outer membrane channel/bacteriophage T2 receptor/protein YfdF |
| RA | 2,473,773 | A→G | N57S (AAC→AGC) | yfdP → | CPS‑53 (KpLE1) prophage; protein YfdP |
| RA | 2,482,011 | T→C | T56A (ACC→GCC) | emrY ← | tripartite efflux pump membrane subunit EmrY |
| RA | 2,488,994 | C→T | G59R (GGA→AGA) | yfdE ← | acetyl‑CoA:oxalate CoA‑transferase |
| RA | 2,490,407 | T→C | N515S (AAC→AGC) | oxc ← | oxalyl‑CoA decarboxylase |
| RA | 2,511,786 | T→C | T307T (ACA→ACG) | mntH ← | Mn(2(+))/Fe(2(+)): H(+) symporter MntH |
| RA | 2,527,823 | T→C | V293A (GTG→GCG) | yfeH → | putative solute:Na(+) symporter |
| RA | 2,533,577 | T→C | intergenic (+197/‑187) | cysK → / → ptsH | O‑acetylserine sulfhydrylase A/phosphocarrier protein HPr |
| RA | 2,561,765 | T→C | C47C (TGT→TGC) | yffN → | CPZ‑55 prophage; uncharacterized protein YffN |
| RA | 2,576,882 | A→G | V499A (GTC→GCC) | maeB ← | malate dehydrogenase |
| RA | 2,675,642 | G→A | C40C (TGC→TGT) | yphC ← | putative zinc‑binding dehydrogenase YphC |
| RA | 2,695,585 | (G)7→8 | intergenic (‑42/‑216) | purL ← / → mltF | phosphoribosylformylglycinamide synthetase/membrane‑bound lytic murein transglycosylase F |
| RA | 2,722,210 | A→G | Y753C (TAC→TGC) | patZ → | peptidyl‑lysine acetyltransferase |
| RA | 2,748,674 | T→C | V238A (GTC→GCC) | ypjD → | cytochrome c assembly family protein |
| RA | 2,765,794 | (C)7→6 | intergenic (‑18/‑124) | yfjM ← / → rnlA | CP4‑57 prophage; protein YfjM/CP4‑57 prophage; RNase LS, toxin of the RnlAB toxin‑antitoxin system |
| RA | 2,793,078 | T→C | V115A (GTG→GCG) | gabT → | 4‑aminobutyrate aminotransferase GabT |
| RA | 2,811,134 | A→G | H122R (CAC→CGC) | mprA → | DNA‑binding transcriptional repressor MprA |
| RA | 2,830,289 | T→C | N159N (AAT→AAC) | gutQ → | D‑arabinose 5‑phosphate isomerase GutQ |
| RA | 2,840,034 | A→G | I171V (ATC→GTC) | ascF → | beta‑glucoside specific PTS enzyme IIBC component |
| MC JC | 2,857,096 | Δ2,538 bp | coding (4‑2541/2562 nt) | mutS → | DNA mismatch repair protein MutS |
| RA | 2,870,786 | (C)5→6 | coding (519/1050 nt) | truD ← | tRNA pseudouridine(13) synthase |
| RA | 2,900,306 | (A)9→8 | intergenic (‑33/‑286) | ygcW ← / → yqcE | putative deoxygluconate dehydrogenase/putative transport protein YqcE |
| RA | 2,902,347 | A→G | D151G (GAT→GGT) | ygcE → | putative sugar kinase YgcE |
| RA | 2,903,376 | T→C | intergenic (+2/+1371) | ygcE → / ← queE | putative sugar kinase YgcE/putative 7‑carboxy‑7‑deazaguanine synthase QueE |
| RA | 2,906,811 | G→A | D377D (GAC→GAT) | eno ← | enolase |
| RA | 2,942,289 | (C)5→6 | coding (279/918 nt) | gcvA ← | DNA‑binding transcriptional dual regulator GcvA |
| RA | 2,949,993 | (T)5→6 | coding (752/1332 nt) | argA → | N‑acetylglutamate synthase |
| RA | 2,957,264 | A→G | Y541H (TAT→CAT) | ptrA ← | protease 3 |
| RA | 2,964,480 | G→A | P226S (CCG→TCG) | thyA ← | thymidylate synthase |
| RA | 2,990,286 | T→C | K25K (AAA→AAG) | yqeK ← | protein YqeK |
| RA | 2,994,202 | (A)7→6 | pseudogene (264/503 nt) | pbl → | transglycosylase domain‑containing protein Pbl |
| RA | 3,000,529 | T→C | V62A (GTG→GCG) | xdhA → | putative xanthine dehydrogenase molybdenum‑binding subunit XdhA |
| RA | 3,013,537 | T→C | T235A (ACG→GCG) | yqeB ← | XdhC‑CoxI family protein YqeB |
| RA | 3,022,651 | G→A | G446S (GGT→AGT) | xdhD → | fused putative xanthine/hypoxanthine oxidase: molybdopterin‑binding subunit and Fe‑S binding subunit |
| RA | 3,028,788 | G→A | G75G (GGC→GGT) | ygfS ← | putative oxidoreductase, 4Fe‑4S ferredoxin‑type subunit |
| RA | 3,068,157 | T→C | intergenic (‑77/+16) | yggE ← / ← argO | uncharacterized protein YggE/L‑arginine exporter |
| RA | 3,076,176 | A→G | S3P (TCC→CCC) | yggF ← | fructose 1,6‑bisphosphatase YggF |
| RA | 3,081,769 | T→C | intergenic (‑134/‑144) | tktA ← / → loiP | transketolase 1/metalloprotease LoiP |
| RA | 3,084,908 | T→C | Y335C (TAC→TGC) | speA ← | arginine decarboxylase, biosynthetic |
| RA | 3,118,282 | A→G | G277G (GGT→GGC) | yghJ ← | putative lipoprotein YghJ |
| RA | 3,130,114 | Δ1 bp | coding (102/1173 nt) | yghO ← | putative DNA‑binding transcriptional regulator YghO |
| RA | 3,133,542 | G→A | P139L (CCG→CTG) | yghS ← | putative ATP‑binding protein YghS |
| RA | 3,140,431 | G→A | G123G (GGC→GGT) | hybE ← | hydrogenase 2‑specific chaperone |
| RA | 3,192,722 | T→C | L172P (CTA→CCA) | yqiJ → | putative inner membrane protein |
| RA | 3,240,984 | (G)7→6 | coding (1041/1245 nt) | sstT → | serine/threonine:Na(+) symporter |
| RA | 3,246,323 | G→A | G367E (GGG→GAG) | exuT → | hexuronate transporter |
| RA | 3,268,018 | A→G | E55E (GAA→GAG) | yhaB → | protein YhaB |
| RA | 3,283,461 | C→T | H107Y (CAC→TAC) | kbaY → | tagatose‑1,6‑bisphosphate aldolase 1 subunit KbaY |
| RA | 3,311,807 | G→A | intergenic (‑123/+26) | rpsO ← / ← truB | 30S ribosomal subunit protein S15/tRNA pseudouridine(55) synthase |
| RA | 3,328,883 | T→C | intergenic (‑168/‑80) | greA ← / → dacB | transcription elongation factor GreA/peptidoglycan DD‑endopeptidase DacB |
| RA | 3,331,902 | C→T | M278I (ATG→ATA) | yhbE ← | inner membrane protein YhbE |
| RA | 3,344,165 | A→G | A74A (GCA→GCG) | 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 | 3,375,656 | A→G | H263R (CAC→CGC) | dcuD → | putative transporter DcuD |
| RA | 3,384,864 | T→C | G54G (GGT→GGC) | argR → | DNA‑binding transcriptional dual regulator ArgR |
| RA | 3,388,726 | A→G | V134A (GTT→GCT) | aaeA ← | aromatic carboxylic acid efflux pump membrane fusion protein |
| RA | 3,411,866 | T→C | C72R (TGC→CGC) | yhdJ → | DNA adenine methyltransferase |
| RA | 3,422,782 | T→C | V116A (GTA→GCA) | yhdZ → | putative ABC transporter ATP‑binding subunit YhdZ |
| RA | 3,423,705 | +C | noncoding (83/120 nt) | rrfD ← | 5S ribosomal RNA |
| RA | 3,465,960 | T→C | C140R (TGT→CGT) | gspO → | Type II secretion system prepilin peptidase |
| RA | 3,503,538 | A→G | G124G (GGA→GGG) | frlD → | fructoselysine 6‑kinase |
| RA | 3,507,384 | T→C | E106E (GAA→GAG) | yhfU ← | DUF2620 domain‑containing protein YhfU |
| RA | 3,546,546 | G→A | intergenic (+347/‑13) | nfuA → / → gntT | iron‑sulfur cluster carrier protein NfuA/high‑affinity gluconate transporter |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,587,714 | G→A | R134C (CGC→TGC) | ugpQ ← | glycerophosphodiester phosphodiesterase |
| RA | 3,622,960 | (G)5→6 | coding (3769/4236 nt) | rhsB → | rhs element protein RhsB |
| RA | 3,627,336 | C→T | A735T (GCC→ACC) | rbbA ← | ribosome‑associated ATPase |
| RA | 3,642,649 | T→C | T162A (ACC→GCC) | rsmJ ← | 16S rRNA m(2)G1516 methyltransferase |
| RA | 3,728,118 | (C)8→7 | coding (1254/1455 nt) | xylB ← | xylulokinase |
| RA | 3,744,442 | G→A | E39K (GAA→AAA) | yiaM → | 2,3‑diketo‑L‑gulonate:Na(+) symporter ‑ membrane subunit |
| RA | 3,767,186 | T→C | intergenic (+7/‑35) | yibA → / → yibJ | putative lyase containing HEAT‑repeat/putative RHS domain‑containing protein YibJ |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,860,630 | (C)5→4 | coding (348/894 nt) | yidL → | putative DNA‑binding transcriptional regulator YidL |
| RA | 3,877,479 | A→G | intergenic (‑14/+226) | yidB ← / ← gyrB | conserved protein YidB/DNA gyrase subunit B |
| RA | 3,879,714 | G→A | R136C (CGC→TGC) | gyrB ← | DNA gyrase subunit B |
| RA | 3,894,463 | T→C | W195R (TGG→CGG) | yieE → | putative phosphopantetheinyl transferase |
| RA | 3,905,639 | (A)9→8 | intergenic (‑42/+92) | bglF ← / ← bglG | beta‑glucoside specific PTS enzyme II/BglG kinase/BglG phosphatase/transcriptional antiterminator BglG |
| RA | 3,931,949 | A→G | T212A (ACG→GCG) | kup → | K(+):H(+) symporter Kup |
| RA | 3,944,114 | (G)6→7 | noncoding (411/2904 nt) | rrlC → | 23S ribosomal RNA |
| RA | 3,960,276 | A→G | pseudogene (185/449 nt) | yifN ← | putative toxin YifN |
| RA | 3,998,655 | A→G | T225A (ACC→GCC) | uvrD → | ssDNA translocase and dsDNA helicase ‑ DNA helicase II |
| RA | 4,002,135 | T→C | V237A (GTG→GCG) | corA → | Ni(2(+))/Co(2(+))/Mg(2(+)) transporter |
| RA | 4,002,463 | A→G | F113L (TTC→CTC) | yigF ← | DUF2628 domain‑containing protein YigF |
| RA | 4,003,610 | G→A | A190V (GCG→GTG) | rarD ← | putative transporter RarD |
| RA | 4,060,280 | (T)9→8 | intergenic (+50/‑167) | bipA → / → yihL | ribosome‑dependent GTPase, ribosome assembly factor/putative transcriptional regulator YihL |
| RA | 4,143,734 | A→G | V37V (GTA→GTG) | frwB → | putative PTS enzyme IIB component FrwB |
| RA | 4,186,870 | A→G | V507V (GTA→GTG) | rpoC → | RNA polymerase subunit beta' |
| RA | 4,189,927 | A→G | T48A (ACC→GCC) | yjaZ → | conserved protein YjaZ |
| RA | 4,198,875 | A→T | D29V (GAT→GTT) | nfi → | endonuclease V |
| RA | 4,206,768 | A→G | V255V (GTT→GTC) | purH ← | bifunctional AICAR transformylase/IMP cyclohydrolase |
| RA | 4,241,977 | A→G | V93A (GTC→GCC) | xylE ← | D‑xylose:H(+) symporter |
| RA | 4,283,282 | A→G | F541L (TTT→CTT) | actP ← | acetate/glycolate:cation symporter |
| RA | 4,288,518 | A→G | N252S (AAC→AGC) | nrfA → | cytochrome c552 nitrite reductase |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,311,353 | A→G | G230G (GGT→GGC) | alsB ← | D‑allose ABC transporter periplasmic binding protein |
| RA | 4,321,563 | C→T | G45D (GGC→GAC) | phnG ← | carbon‑phosphorus lyase core complex subunit PhnG |
| RA | 4,334,604 | A→G | C329C (TGT→TGC) | eptA ← | phosphoethanolamine transferase EptA |
| RA | 4,356,045 | A→G | L123L (TTG→CTG) | dtpC ← | dipeptide/tripeptide:H(+) symporter DtpC |
| RA | 4,362,037 | A→G | intergenic (‑103/+514) | cadC ← / ← pheU | DNA‑binding transcriptional activator CadC/tRNA‑Phe |
| RA | 4,379,460 | C→T | G105R (GGA→AGA) | frdC ← | fumarate reductase membrane protein FrdC |
| MC JC | 4,396,110 | (CTG)4→3 | coding (46‑48/1338 nt) | amiB → | N‑acetylmuramoyl‑L‑alanine amidase B |
| RA | 4,410,053 | (T)9→8 | intergenic (+47/‑80) | rlmB → / → yjfI | 23S rRNA 2'‑O‑ribose G2251 methyltransferase/conserved protein YjfI |
| RA | 4,434,195 | A→G | H28R (CAC→CGC) | ytfH → | putative transcriptional regulator YtfH |
| RA | 4,438,594 | (A)6→7 | coding (888/939 nt) | ytfI → | protein YtfI |
| RA | 4,445,549 | A→G | T480A (ACC→GCC) | tamB → | translocation and assembly module subunit TamB |
| RA | 4,495,766 | C→T | G148G (GGG→GGA) | ahr ← | aldehyde reductase, NADPH‑dependent |
| RA | 4,502,150 | G→A | P428S (CCC→TCC) | insG ← | KpLE2 phage‑like element; IS4 putative transposase |
| RA | 4,556,769 | (T)9→8 | coding (116/144 nt) | ytiD → | protein YtiD |
| RA | 4,580,713 | A→G | H250H (CAT→CAC) | hsdS ← | type I restriction enzyme EcoKI specificity protein |
| RA | 4,585,687 | A→G | Y359H (TAT→CAT) | hsdR ← | type I restriction enzyme EcoKI endonuclease component |
| RA | 4,593,116 | A→G | N487S (AAC→AGC) | tsr → | methyl‑accepting chemotaxis protein Tsr |
| RA | 4,606,215 | (G)8→9 | noncoding (72/87 nt) | leuP ← | tRNA‑Leu |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 226393–226968 | 228563–226971 | 4–2171 | 21 [19] | [18] 20 | rrlH | 23S ribosomal RNA |
| * | * | ÷ | NC_000913 | 731950 | 732351–731990 | 41–402 | 20 [19] | [19] 20 | rhsC | rhs element protein RhsC |
| * | * | ÷ | NC_000913 | 732523–732953 | 733134–733096 | 144–612 | 22 [15] | [19] 20 | rhsC | rhs element protein RhsC |
| * | * | ÷ | NC_000913 | 734273–734290 | 734327 | 38–55 | 21 [18] | [15] 20 | ybfO | conserved protein, rhs‑like YbfO |
| * | * | ÷ | NC_000913 | 734861–734923 | 734977–734944 | 22–117 | 20 [19] | [19] 20 | ybfO | conserved protein, rhs‑like YbfO |
| * | * | ÷ | NC_000913 | 1196277 | 1211428 | 15152 | 24 [19] | [18] 21 | [icd]–[icdC] | [icd],ymfD,ymfE,lit,intE,xisE,ymfH,ymfI,ymfJ,ymfK,ymfT,ymfL,ymfM,oweE,ymfN,aaaE,ymfR,beeE,jayE,ymfQ,ycfK,tfaP,tfaE,stfE,pinE,mcrA,[icdC] |
| * | * | ÷ | NC_000913 | 1286955 | 1287090 | 136 | 20 [19] | [19] 24 | [ychS]–[tpr] | [ychS],[rttR],[tpr] |
| * | * | ÷ | NC_000913 | 2818261 | 2818491 | 231 | 22 [18] | [0] 53 | [argY]–[argV] | [argY],[argV] |
| * | * | ÷ | NC_000913 | 3762359–3765288 | 3765529–3765414 | 127–3171 | 20 [18] | [17] 24 | rhsA | rhs element protein RhsA |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 88 (0.990) | 53/268 | 0.3 | 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 | = 2817942 | 90 (0.980) | 37 (0.470) | 19/236 | 2.1 | 49.0% | intergenic (‑82/+117) | argQ/argZ | tRNA‑Arg/tRNA‑Arg |
| ? | NC_000913 | 2818492 = | 0 (0.000) | noncoding (58/77 nt) | argV | tRNA‑Arg | |||||
| * | ? | NC_000913 | 3363001 = | 166 (1.810) | 174 (1.920) | 73/274 | 0.1 | 67.1% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 6 (0.070) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 113 (1.230) | 68/276 | 0.1 | 93.4% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 8 (0.090) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||