mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.29.0 revision 8f9c342918e4
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| RA | 34,876 | A→G | C166R (TGT→CGT) | caiE ← | stimulator of CaiD and CaiB enzyme activities |
| RA | 44,310 | A→G | N44S (AAC→AGC) | fixC → | putative oxidoreductase |
| RA | 48,048 | A→G | M94V (ATG→GTG) | kefC → | potassium:proton antiporter |
| RA | 96,645 | T→C | V215A (GTG→GCG) | mraY → | phospho‑N‑acetylmuramoyl‑pentapeptide transferase |
| RA | 126,862 | C→T | P390S (CCG→TCG) | aceF → | pyruvate dehydrogenase, dihydrolipoyltransacetylase component E2 |
| RA | 143,721 | T→C | V7A (GTG→GCG) | yadH → | putative ABC transporter permease |
| RA | 218,942 | A→G | V218A (GTT→GCT) | tsaA ← | tRNA‑Thr(GGU) m(6)t(6)A37 methyltransferase, SAM‑dependent |
| RA | 231,803 | C→T | P228S (CCG→TCG) | yafD → | endo/exonuclease/phosphatase family protein |
| RA | 246,784 | G→A | A25T (GCC→ACC) | yafL → | putative lipoprotein and C40 family peptidase |
| MC JC | 257,908 | Δ776 bp | [crl] | [crl] | |
| RA | 261,402 | G→A | A339T (GCC→ACC) | proB → | gamma‑glutamate kinase |
| RA | 267,775 | A→G | R77R (CGT→CGC) | yafZ ← | CP4‑6 prophage; conserved protein |
| RA | 277,958 | A→G | L282P (CTC→CCC) | afuC ← | CP4‑6 prophage; putative ferric transporter subunit |
| RA | 277,996 | A→G | G269G (GGT→GGC) | afuC ← | CP4‑6 prophage; putative ferric transporter subunit |
| RA | 280,171 | G→A | pseudogene (192/249 nt) | insX ← | pseudogene, IS3 family transposase family |
| RA | 295,230 | G→A | T117M (ACG→ATG) | yagN ← | CP4‑6 prophage; uncharacterized protein |
| RA | 313,726 | A→G | pseudogene (80/90 nt) | ykgP ← | pseudogene, oxidoreductase family |
| RA | 378,025 | T→C | Y115C (TAC→TGC) | frmB ← | S‑formylglutathione hydrolase |
| RA | 380,022 | (G)10→9 | intergenic (‑141/+47) | frmR ← / ← yaiO | regulator protein that represses frmRAB operon/outer membrane protein |
| RA | 394,030 | A→G | pseudogene (1061/1449 nt) | yaiT → | pseudogene, autotransporter family;putative structure; Not classified; interrupted by IS3; putative flagellin structural protein |
| RA | 450,945 | A→G | A222A (GCT→GCC) | cyoA ← | cytochrome o ubiquinol oxidase subunit II |
| RA | 483,580 | T→C | Y275C (TAC→TGC) | acrB ← | multidrug efflux system protein |
| RA | 483,985 | A→G | V140A (GTC→GCC) | acrB ← | multidrug efflux system protein |
| RA | 515,571 | A→G | I68T (ATC→ACC) | qmcA ← | PHB domain membrane‑anchored putative protease |
| RA | 523,741 | (G)6→7 | coding (481/4281 nt) | rhsD → | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| RA | 535,299 | T→C | F462L (TTC→CTC) | gcl → | glyoxylate carboligase |
| RA | 553,403 | C→T | V180I (GTC→ATC) | lpxH ← | UDP‑2,3‑diacylglucosamine pyrophosphohydrolase |
| RA | 574,383 | G→A | intergenic (+44/+146) | quuD → / ← nmpC | DLP12 prophage; putative antitermination protein/DLP12 prophage; truncated outer membrane porin (pseudogene);IS, phage, Tn; Phage or Prophage Related; outer membrane porin protein; locus of qsr prophage |
| RA | 577,085 | G→A | intergenic (‑260/‑313) | nmpC ← / → essD | DLP12 prophage; truncated outer membrane porin (pseudogene);IS, phage, Tn; Phage or Prophage Related; outer membrane porin protein; locus of qsr prophage/DLP12 prophage; putative phage lysis protein |
| RA | 578,102 | C→T | Q164* (CAA→TAA) | rrrD → | DLP12 prophage; putative lysozyme |
| RA | 586,073 | C→T | pseudogene (17/45 nt) | pauD → | tRNA‑OTHER |
| RA | 598,492 | A→G | E338E (GAA→GAG) | cusB → | copper/silver efflux system, membrane fusion protein |
| RA | 620,791 | A→G | V133A (GTC→GCC) | fepG ← | iron‑enterobactin ABC transporter permease |
| RA | 642,536 | A→G | N150S (AAT→AGT) | ybdR → | putative Zn‑dependent NAD(P)‑binding oxidoreductase |
| RA | 701,574 | A→G | A7A (GCT→GCC) | nagC ← | N‑acetylglucosamine‑inducible nag divergent operon transcriptional repressor |
| RA | 706,673 | T→C | I194T (ATT→ACT) | glnS → | glutamyl‑tRNA synthetase |
| RA | 723,576 | A→G | V280A (GTC→GCC) | kdpD ← | fused sensory histidine kinase in two‑component regulatory system with KdpE: signal sensing protein |
| RA | 741,429 | A→G | S376S (TCT→TCC) | dtpD ← | dipeptide and tripeptide permease D |
| RA | 747,436 | T→C | T112A (ACC→GCC) | abrB ← | regulator of aidB expression; inner membrane protein |
| RA | 771,344 | T→C | intergenic (+733/‑114) | mngB → / → cydA | alpha‑mannosidase/cytochrome d terminal oxidase, subunit I |
| RA | 780,999 | A→G | intergenic (+81/‑69) | lysW → / → valZ | tRNA‑Lys/tRNA‑Val |
| RA | 781,084 | T→C | noncoding (17/76 nt) | valZ → | tRNA‑Val |
| RA | 785,828 | C→T | P66S (CCT→TCT) | aroG → | 3‑deoxy‑D‑arabino‑heptulosonate‑7‑phosphate synthase, phenylalanine repressible |
| RA | 797,155 | T→C | V201A (GTA→GCA) | modC → | molybdate ABC transporter ATPase; chlorate resistance protein |
| RA | 807,115 | T→C | Q56R (CAA→CGA) | ybhC ← | acyl‑CoA thioesterase, lipoprotein |
| RA | 868,415 | C→T | A299V (GCC→GTC) | gsiA → | glutathione ABC transporter ATPase |
| RA | 897,997 | C→T | D3D (GAC→GAT) | ybjO → | DUF2593 family inner membrane protein |
| RA | 925,555 | A→G | intergenic (+15/+329) | clpA → / ← serW | ATPase and specificity subunit of ClpA‑ClpP ATP‑dependent serine protease, chaperone activity/tRNA‑Ser |
| RA | 929,067 | G→A | L43L (CTC→CTT) | cydC ← | glutathione/cysteine ABC transporter export permease/ATPase |
| JC JC | 944,912 | Δ1 bp :: IS186 (+) +6 bp :: Δ1 bp | intergenic (+16/+14) | dmsC → / ← ycaC | dimethyl sulfoxide reductase, anaerobic, subunit C/putative isochorismatase family hydrolase |
| RA | 964,634 | T→C | R105R (CGT→CGC) | ycaI → | ComEC family inner membrane protein |
| RA | 980,655 | A→G | T1444A (ACC→GCC) | mukB → | chromosome condensin MukBEF, ATPase and DNA‑binding subunit |
| RA | 1,009,102 | T→C | L420P (CTG→CCG) | rlmL → | 23S rRNA m(2)G2445 and m(7)G2069 methyltransferases, SAM‑dependent |
| RA | 1,097,218 | (G)7→8 | intergenic (+389/+347) | ycdU → / ← serX | putative inner membrane protein/tRNA‑Ser |
| RA | 1,154,782 | A→G | E224G (GAA→GGA) | yceG → | septation protein, ampicillin sensitivity |
| RA | 1,158,225 | C→T | L119L (CTC→CTT) | ptsG → | fused glucose‑specific PTS enzymes: IIB component/IIC component |
| RA | 1,169,759 | C→T | D206N (GAT→AAT) | ldtC ← | L,D‑transpeptidase linking Lpp to murein |
| RA | 1,201,206 | T→C | intergenic (‑174/‑291) | xisE ← / → ymfI | e14 prophage; putative excisionase/e14 prophage; uncharacterized protein |
| RA | 1,205,497 | T→C | pseudogene (1094/1134 nt) | aaaE → | pseudogene, phage terminase protein A family, e14 prophage;Phage or Prophage Related |
| RA | 1,226,899 | T→C | G100G (GGT→GGC) | ycgJ → | uncharacterized protein |
| RA | 1,246,015 | T→C | A454A (GCA→GCG) | treA ← | periplasmic trehalase |
| RA | 1,308,170 | T→C | D159G (GAC→GGC) | clsA ← | cardiolipin synthase 1 |
| RA | 1,308,467 | T→C | E60G (GAG→GGG) | clsA ← | cardiolipin synthase 1 |
| RA | 1,314,744 | T→C | T161A (ACT→GCT) | yciE ← | putative rubrerythrin/ferritin‑like metal‑binding protein |
| RA | 1,345,482 | G→A | Q421* (CAG→TAG) | gmr ← | cyclic‑di‑GMP phosphodiesterase; csgD regulator; modulator of RNase II stability |
| RA | 1,348,601 | T→C | P104P (CCA→CCG) | rnb ← | ribonuclease II |
| RA | 1,370,155 | A→G | intergenic (+152/‑61) | pspE → / → ycjM | thiosulfate:cyanide sulfurtransferase (rhodanese)/alpha amylase catalytic domain family protein |
| RA | 1,388,699 | A→G | V38A (GTC→GCC) | tpx ← | lipid hydroperoxide peroxidase |
| RA | 1,411,458 | T→C | Y164C (TAC→TGC) | ttcA ← | tRNA s(2)C32 thioltransferase, iron sulfur cluster protein |
| RA | 1,420,637 | C→T | N91N (AAC→AAT) | ydaS → | Rac prophage; putative DNA‑binding transcriptional regulator |
| RA | 1,423,878 | T→C | F33L (TTT→CTT) | trkG → | Rac prophage; potassium transporter subunit |
| RA | 1,432,646 | T→G | V79G (GTG→GGG) | tfaR → | Rac prophage; putative tail fiber assembly protein |
| RA | 1,436,536 | A→G | Y120H (TAC→CAC) | ompN ← | outer membrane pore protein N, non‑specific |
| RA | 1,457,427 | A→G | Y333C (TAT→TGT) | paaE → | ring 1,2‑phenylacetyl‑CoA epoxidase, NAD(P)H oxidoreductase component |
| RA | 1,556,571 | T→C | intergenic (‑291/‑54) | bdm ← / → osmC | biofilm‑dependent modulation protein/lipoyl‑dependent Cys‑based peroxidase, hydroperoxide resistance; salt‑shock inducible membrane protein; peroxiredoxin |
| RA | 1,644,942 | C→T | intergenic (‑40/+177) | rem ← / ← hokD | Qin prophage; uncharacterized protein/Qin prophage; small toxic polypeptide |
| RA | 1,740,586 | T→C | S226P (TCA→CCA) | ydhC → | putative arabinose efflux transporter |
| RA | 1,772,863 | C→T | L118L (CTG→TTG) | ydiN → | putative MFS transporter, membrane protein |
| RA | 1,863,313 | T→C | A181A (GCT→GCC) | gapA → | glyceraldehyde‑3‑phosphate dehydrogenase A |
| RA | 1,883,282 | T→C | L32P (CTC→CCC) | yeaV → | putative transporter |
| RA | 1,945,827 | G→A | H50H (CAC→CAT) | ruvA ← | component of RuvABC resolvasome, regulatory subunit |
| RA | 1,954,771 | A→G | V746A (GTG→GCG) | torZ ← | trimethylamine N‑oxide reductase system III, catalytic subunit |
| RA | 1,955,440 | T→C | Q523R (CAG→CGG) | torZ ← | trimethylamine N‑oxide reductase system III, catalytic subunit |
| RA | 1,961,199 | T→C | F380L (TTC→CTC) | argS → | arginyl‑tRNA synthetase |
| RA | 1,975,275 | T→C | D17G (GAC→GGC) | cheA ← | fused chemotactic sensory histidine kinase in two‑component regulatory system with CheB and CheY: sensory histidine kinase/signal sensing protein |
| MC JC | 1,978,503 | Δ776 bp | insB1–insA | insB1, insA | |
| RA | 2,000,046 | G→A | R114C (CGC→TGC) | fliY ← | cystine transporter subunit |
| RA | 2,049,101 | T→C | G1388G (GGT→GGC) | yeeJ → | putative adhesin |
| RA | 2,098,260 | G→A | D14D (GAC→GAT) | wzzB ← | regulator of length of O‑antigen component of lipopolysaccharide chains |
| RA | 2,117,002 | T→C | T42T (ACA→ACG) | wcaL ← | putative glycosyl transferase |
| RA | 2,163,510 | T→C | V212A (GTA→GCA) | baeS → | sensory histidine kinase in two‑component regulatory system with BaeR |
| RA | 2,173,363 | Δ2 bp | intergenic (‑1/+1) | gatC ← / ← gatC | pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC/pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC |
| RA | 2,202,588 | T→C | A770A (GCT→GCC) | yehI → | DUF4132 domain‑containing protein |
| RA | 2,224,908 | C→T | intergenic (‑38/+136) | pbpG ← / ← yohC | D‑alanyl‑D‑alanine endopeptidase/Yip1 family inner membrane protein |
| RA | 2,241,409 | T→C | Q87R (CAG→CGG) | galS ← | galactose‑ and fucose‑inducible galactose regulon transcriptional isorepressor; mgl operon transcriptional repressor; autorepressor |
| RA | 2,244,134 | A→G | V75V (GTA→GTG) | yeiG → | S‑formylglutathione hydrolase |
| RA | 2,254,920 | G→A | G89G (GGC→GGT) | rihB ← | ribonucleoside hydrolase 2 |
| RA | 2,258,247 | A→G | F41L (TTC→CTC) | psuG ← | pseudouridine 5'‑phosphate glycosidase |
| RA | 2,430,394 | T→C | T124A (ACC→GCC) | cvpA ← | colicin V production protein |
| RA | 2,441,814 | T→C | G17G (GGT→GGC) | mnmC → | fused 5‑methylaminomethyl‑2‑thiouridine‑forming enzyme methyltransferase and FAD‑dependent demodification enzyme |
| RA | 2,442,524 | C→T | A254V (GCG→GTG) | mnmC → | fused 5‑methylaminomethyl‑2‑thiouridine‑forming enzyme methyltransferase and FAD‑dependent demodification enzyme |
| RA | 2,449,635 | (C)5→6 | coding (415/822 nt) | yfcO ← | DUF2544 family putative outer membrane protein |
| RA | 2,460,381 | G→A | T30M (ACG→ATG) | fadI ← | beta‑ketoacyl‑CoA thiolase, anaerobic, subunit |
| RA | 2,467,446 | A→G | K301R (AAG→AGG) | intS → | CPS‑53 (KpLE1) prophage; putative prophage CPS‑53 integrase |
| RA | 2,534,187 | A→G | E41G (GAA→GGA) | ptsI → | PEP‑protein phosphotransferase of PTS system (enzyme I) |
| RA | 2,539,372 | T→C | N71S (AAC→AGC) | cysM ← | cysteine synthase B (O‑acetylserine sulfhydrolase B) |
| RA | 2,589,108 | A→G | H505R (CAT→CGT) | acrD → | aminoglycoside/multidrug efflux system |
| RA | 2,609,458 | T→C | R324R (CGT→CGC) | hyfG → | hydrogenase 4, subunit |
| RA | 2,611,725 | A→G | H90R (CAC→CGC) | hyfJ → | putative processing element hydrogenase 4 |
| RA | 2,629,930 | A→G | T47A (ACC→GCC) | yfgH → | outer membrane integrity lipoprotein |
| MC JC | 2,636,790 | (TTC)3→2 | coding (565‑567/1473 nt) | der ← | GTPase; multicopy suppressor of ftsJ |
| RA | 2,647,150 | G→A | A59V (GCT→GTT) | pbpC ← | penicillin‑insensitive murein repair transglycosylase; inactive transpeptidase domain protein |
| RA | 2,662,523 | A→G | intergenic (‑392/+60) | iscR ← / ← trmJ | isc operon transcriptional repressor; suf operon transcriptional activator; oxidative stress‑ and iron starvation‑inducible; autorepressor/tRNA mC32,mU32 2'‑O‑methyltransferase, SAM‑dependent |
| RA | 2,706,291 | A→G | R278R (CGT→CGC) | lepA ← | back‑translocating elongation factor EF4, GTPase |
| RA | 2,767,140 | T→C | L53L (TTG→CTG) | rnlB → | CP4‑57 prophage; uncharacterized protein |
| RA | 2,780,330 | G→A | G799G (GGC→GGT) | ypjA ← | adhesin‑like autotransporter |
| RA | 2,857,878 | T→C | R262R (CGT→CGC) | mutS → | methyl‑directed mismatch repair protein |
| RA | 2,865,819 | T→C | V240A (GTC→GCC) | ygbN → | putative transporter |
| RA | 2,889,256 | T→C | T282A (ACG→GCG) | cysI ← | sulfite reductase, beta subunit, NAD(P)‑binding, heme‑binding |
| RA | 2,912,885 | A→G | I256T (ATC→ACC) | relA ← | (p)ppGpp synthetase I/GTP pyrophosphokinase |
| RA | 2,960,844 | T→C | T529A (ACG→GCG) | recC ← | exonuclease V (RecBCD complex), gamma chain |
| RA | 2,978,727 | T→C | N58S (AAT→AGT) | lysA ← | diaminopimelate decarboxylase, PLP‑binding |
| RA | 2,994,896 | G→C | pseudogene (197/633 nt) | ygeK ← | pseudogene, response regulator family, part of T3SS PAI ETT2 remnant; putative 2‑component transcriptional regulator |
| RA | 2,998,606 | A→G | pseudogene (223/1137 nt) | ygeQ ← | pseudogene, glycosyl hydrolase family 15, part of T3SS PAI ETT2 remnant |
| RA | 3,018,435 | A→G | E792E (GAA→GAG) | ygfK → | putative Fe‑S subunit oxidoreductase subunit |
| RA | 3,071,369 | T→C | intergenic (‑125/+90) | fbaA ← / ← pgk | fructose‑bisphosphate aldolase, class II/phosphoglycerate kinase |
| RA | 3,086,618 | A→G | intergenic (+216/‑88) | yqgC → / → metK | uncharacterized protein/S‑adenosylmethionine synthetase |
| RA | 3,272,271 | Δ1 bp | coding (481/885 nt) | garR ← | tartronate semialdehyde reductase |
| RA | 3,297,933 | T→C | Y69C (TAC→TGC) | yraQ ← | putative inner membrane permease |
| RA | 3,319,794 | T→C | R386R (CGT→CGC) | argG → | argininosuccinate synthetase |
| RA | 3,376,403 | T→C | D125G (GAC→GGC) | sspB ← | ClpXP protease specificity enhancing factor |
| RA | 3,377,215 | A→G | L69P (CTG→CCG) | sspA ← | stringent starvation protein A, phage P1 late gene activator, RNAP‑associated acid‑resistance protein, inactive glutathione S‑transferase homolog |
| RA | 3,440,116 | T→C | D305G (GAC→GGC) | rpoA ← | RNA polymerase, alpha subunit |
| RA | 3,449,100 | T→C | T24A (ACG→GCG) | rplP ← | 50S ribosomal subunit protein L16 |
| RA | 3,453,207 | T→C | T22A (ACC→GCC) | rpsJ ← | 30S ribosomal subunit protein S10 |
| RA | 3,507,100 | T→C | L79L (TTA→TTG) | yhfT ← | inner membrane protein |
| RA | 3,511,296 | T→C | T43A (ACG→GCG) | yhfY ← | PRD domain protein |
| RA | 3,515,565 | A→G | Y117H (TAC→CAC) | dam ← | DNA adenine methyltransferase |
| RA | 3,537,161 | A→G | Y117C (TAC→TGC) | greB → | transcript cleavage factor |
| RA | 3,560,455 | +G | intergenic (‑2/+1) | glpR ← / ← glpR | pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon/pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon |
| RA | 3,589,630 | A→G | V133A (GTG→GCG) | ugpE ← | sn‑glycerol‑3‑phosphate ABC transporter permease |
| RA | 3,602,371 | C→T | G126E (GGG→GAG) | ftsE ← | cell division ATP‑binding protein |
| RA | 3,612,540 | T→C | W226R (TGG→CGG) | yhhT → | UPF0118 family putative transporter |
| RA | 3,707,870 | T→C | intergenic (‑165/+746) | dppA ← / ← proK | dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor/tRNA‑Pro |
| RA | 3,778,196 | C→T | L266L (CTC→CTT) | lldP → | L‑lactate permease |
| RA | 3,815,808 | (A)8→7 | intergenic (‑40/+26) | pyrE ← / ← rph | orotate phosphoribosyltransferase/ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH |
| RA | 3,845,824 | T→C | E448E (GAA→GAG) | uhpT ← | hexose phosphate transporter |
| RA | 3,882,798 | T→C | D311G (GAC→GGC) | dnaA ← | chromosomal replication initiator protein DnaA, DNA‑binding transcriptional dual regulator |
| RA | 3,891,768 | G→A | A52T (GCA→ACA) | mdtL → | multidrug efflux system protein |
| RA | 3,937,749 | G→A | A152A (GCG→GCA) | rbsK → | ribokinase |
| RA | 3,948,964 | C→T | A336T (GCC→ACC) | yifB ← | magnesium chelatase family protein and putative transcriptional regulator |
| RA | 4,003,303 | A→G | R292R (CGT→CGC) | rarD ← | putative chloramphenical resistance permease |
| RA | 4,005,381 | A→G | S174G (AGC→GGC) | pldA → | outer membrane phospholipase A |
| RA | 4,076,509 | A→G | S122G (AGC→GGC) | yihY → | BrkB family putative transporter, inner membrane protein |
| RA | 4,078,459 | T→C | intergenic (+21/‑838) | yiiD → / → yiiE | GNAT family putative N‑acetyltransferase/CopG family putative transcriptional regulator |
| RA | 4,118,516 | T→C | M1T (ATG→ACG) † | zapB → | FtsZ stabilizer, septal ring assembly factor, cell division stimulator |
| RA | 4,128,316 | A→G | V27A (GTT→GCT) | metJ ← | transcriptional repressor, S‑adenosylmethionine‑binding |
| RA | 4,185,098 | A→G | Y1285C (TAC→TGC) | rpoB → | RNA polymerase, beta subunit |
| RA | 4,229,213 | C→T | L495L (CTG→TTG) | yjbB → | putative Na+/Pi‑cotransporter |
| RA | 4,264,246 | G→A | intergenic (‑15/‑68) | qorA ← / → dnaB | quinone oxidoreductase, NADPH‑dependent/replicative DNA helicase |
| MC JC | 4,284,437 | (CCA)4→3 | coding (464‑466/1650 nt) | actP ← | acetate transporter |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,342,193 | A→G | T95A (ACG→GCG) | melA → | alpha‑galactosidase, NAD(P)‑binding |
| RA | 4,343,909 | A→G | M181V (ATG→GTG) | melB → | melibiose:sodium symporter |
| RA | 4,350,244 | A→G | V473V (GTT→GTC) | dcuS ← | sensory histidine kinase in two‑component regulatory system with DcuR, regulator of anaerobic fumarate respiration |
| RA | 4,366,223 | A→G | F184S (TTC→TCC) | dcuA ← | C4‑dicarboxylate antiporter |
| RA | 4,399,151 | Δ1 bp | coding (1740/1848 nt) | mutL → | methyl‑directed mismatch repair protein |
| RA | 4,493,603 | T→C | G268G (GGA→GGG) | idnD ← | L‑idonate 5‑dehydrogenase, NAD‑binding |
| RA | 4,500,977 | A→G | intergenic (‑186/‑283) | yjgX ← / → yjgZ | pseudogene fragment/uncharacterized protein |
| RA | 4,550,731 | A→G | V189A (GTA→GCA) | gntP ← | fructuronate transporter |
| RA | 4,590,696 | A→G | V195A (GTC→GCC) | yjiY ← | putative transporter |
| RA | 4,613,359 | C→T | P317S (CCA→TCA) | yjjU → | putative patatin‑like family phospholipase |
| RA | 4,631,960 | C→T | P410S (CCG→TCG) | slt → | lytic murein transglycosylase, soluble |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3423706–3424234 | 3424589–3424238 | 5–884 | 93 [91] | [91] 92 | [rrfD]–[rrlD] | [rrfD], [rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 16 (0.100) | 90 (0.660) | 71/266 | 2.1 | 79.2% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 33 (0.240) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 16 (0.100) | 93 (0.680) | 77/266 | 1.5 | 79.7% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 33 (0.240) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 159 (1.060) | 122/290 | 0.1 | 100% | intergenic (+253/‑1684) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein |
| ? | NC_000913 | 1300698 = | 0 (0.000) | intergenic (+1453/‑484) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein | |||||