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 | freq | annotation | gene | description |
| RA | 9,907 | A→C | 15.5% | intergenic (+14/+21) | mog → / ← satP | molybdochelatase incorporating molybdenum into molybdopterin/succinate‑acetate transporter |
| RA | 9,908 | G→T | 16.0% | intergenic (+15/+20) | mog → / ← satP | molybdochelatase incorporating molybdenum into molybdopterin/succinate‑acetate transporter |
| RA | 36,231 | T→C | 100% | intergenic (‑69/+40) | caiD ← / ← caiC | carnitinyl‑CoA dehydratase/putative crotonobetaine/carnitine‑CoA ligase |
| RA | 53,012 | A→G | 61.4% | G135G (GGT→GGC) | pdxA ← | 4‑hydroxy‑L‑threonine phosphate dehydrogenase, NAD‑dependent |
| RA | 107,553 | (T)9→8 | 100% | intergenic (+79/‑152) | lpxC → / → secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| RA | 129,360 | G→T | 60.8% | intergenic (+24/+47) | lpd → / ← yacH | dihydrolipoyl dehydrogenase; E3 component of pyruvate and 2‑oxoglutarate dehydrogenases complexes; glycine cleavage system L protein; dihydrolipoamide dehydrogenase/DUF3300 family protein |
| RA | 162,973 | G→A | 100% | C290Y (TGT→TAT) | hrpB → | putative ATP‑dependent helicase |
| RA | 178,902 | C→T | 67.0% | L84L (TTG→TTA) | mtn ← | 5'‑methylthioadenosine/S‑adenosylhomocysteine nucleosidase |
| RA | 179,327 | A→T | 72.9% | I31F (ATC→TTC) | dgt → | deoxyguanosine triphosphate triphosphohydrolase |
| JC | 190,553 | Δ14 bp | 100% | coding (680‑693/726 nt) | rpsB → | 30S ribosomal subunit protein S2 |
| RA | 207,486 | G→T | 15.6% | M787I (ATG→ATT) | dnaE → | DNA polymerase III alpha subunit |
| RA | 216,568 | C→T | 100% | A146T (GCC→ACC) | yaeF ← | putative lipoprotein |
| RA | 232,196 | G→T | 69.1% | G91C (GGC→TGC) | yafE → | putative S‑adenosyl‑L‑methionine‑dependent methyltransferase |
| RA | 236,541 | C→T | 100% | R159* (CGA→TGA) | dnaQ → | DNA polymerase III epsilon subunit |
| MC JC | 257,908 | Δ776 bp | 100% | [crl] | [crl] | |
| RA | 265,418 | A→G | 55.9% | R42R (CGT→CGC) | ykfF ← | CP4‑6 prophage; uncharacterized protein |
| RA | 281,581 | G→A | 64.3% | R135W (CGG→TGG) | yagA ← | CP4‑6 prophage; putative DNA‑binding transcriptional regulator |
| RA | 362,884 | A→G | 71.8% | L99S (TTA→TCA) | lacY ← | lactose permease |
| RA | 364,024 | C→T | 58.3% | R761H (CGC→CAC) | lacZ ← | beta‑D‑galactosidase |
| RA | 367,830 | G→A | 59.8% | Y197Y (TAC→TAT) | mhpR ← | mhp operon transcriptional activator |
| RA | 383,477 | G→A | 68.2% | G153G (GGC→GGT) | yaiP ← | putative family 2 glycosyltransferase |
| RA | 400,214 | T→C | 67.5% | D237G (GAC→GGC) | ddlA ← | D‑alanine‑D‑alanine ligase A |
| RA | 409,322 | G→T | 23.8% | A233E (GCG→GAG) | rdgC ← | nucleoid‑associated ssDNA and dsDNA binding protein; competitive inhibitor of RecA function |
| RA | 416,389 | (C)5→4 | 100% | coding (564/1203 nt) | sbcD ← | exonuclease, dsDNA, ATP‑dependent |
| RA | 428,188 | G→T | 100% | R181L (CGC→CTC) | secD → | SecYEG protein translocase auxillary subunit |
| RA | 443,022 | G→A | 16.8% | intergenic (+25/+29) | thiI → / ← yajL | tRNA s(4)U8 sulfurtransferase/oxidative‑stress‑resistance chaperone |
| RA | 443,023 | T→C | 16.2% | intergenic (+26/+28) | thiI → / ← yajL | tRNA s(4)U8 sulfurtransferase/oxidative‑stress‑resistance chaperone |
| RA | 459,256 | T→C | 51.2% | D123D (GAT→GAC) | lon → | DNA‑binding ATP‑dependent protease La |
| RA | 459,642 | A→G | 61.6% | E252G (GAA→GGA) | lon → | DNA‑binding ATP‑dependent protease La |
| RA | 497,139:1 | (T)5→6 | 100% | intergenic (+145/‑36) | htpG → / → adk | protein refolding molecular co‑chaperone Hsp90, Hsp70‑dependent; heat‑shock protein; ATPase/adenylate kinase |
| RA | 520,993 | T→G | 100% | V193G (GTC→GGC) | ybbP → | putative ABC transporter permease |
| RA | 532,380 | A→G | 64.8% | intergenic (‑159/‑71) | allS ← / → allA | allD operon transcriptional activator/ureidoglycolate lyase, releasing urea |
| RA | 548,374 | G→A | 17.2% | A6A (GCG→GCA) | ylbE → | NO‑induced DUF1116 protein |
| RA | 575,915 | T→A | 16.9% | pseudogene (911/1040 nt) | nmpC ← | DLP12 prophage; truncated outer membrane porin (pseudogene);IS, phage, Tn; Phage or Prophage Related; outer membrane porin protein; locus of qsr prophage |
| RA | 580,851 | G→A | 23.2% | K6K (AAG→AAA) | nohD → | DLP12 prophage; DNA packaging protein |
| RA | 649,964:1 | +G | 100% | coding (527/909 nt) | citE ← | citrate lyase, citryl‑ACP lyase (beta) subunit |
| RA | 661,369 | T→C | 63.5% | N4D (AAT→GAT) | ybeF ← | LysR family putative transcriptional regulator |
| RA | 662,636 | T→G | 62.2% | T3P (ACC→CCC) | ybeD ← | UPF0250 family protein |
| RA | 674,180 | G→A | 21.7% | L202L (CTG→TTG) | leuS ← | leucyl‑tRNA synthetase |
| RA | 700,805 | A→T | 100% | C264S (TGC→AGC) | nagC ← | N‑acetylglucosamine‑inducible nag divergent operon transcriptional repressor |
| RA | 720,946 | C→T | 100% | intergenic (+106/+110) | ybfK → / ← kdpE | uncharacterized protein/response regulator in two‑component regulatory system with KdpD |
| RA | 750,896 | Δ1 bp | 100% | coding (1274/2448 nt) | ybgQ ← | putative outer membrane protein |
| RA | 755,789 | G→A | 28.6% | W77* (TGG→TAG) | sdhD → | succinate dehydrogenase, membrane subunit, binds cytochrome b556 |
| RA | 770,679 | G→T | 15.0% | intergenic (+68/‑779) | mngB → / → cydA | alpha‑mannosidase/cytochrome d terminal oxidase, subunit I |
| RA | 772,209 | C→A | 100% | T251N (ACC→AAC) | cydA → | cytochrome d terminal oxidase, subunit I |
| RA | 850,742 | A→G | 23.3% | D98G (GAC→GGC) | ompX → | outer membrane protein X |
| RA | 851,094 | G→A | 67.1% | P502S (CCG→TCG) | opgE ← | OPG biosynthetic transmembrane phosphoethanolamine transferase |
| RA | 882,722 | G→A | 100% | R5C (CGC→TGC) | deoR ← | deoxyribose‑5‑phosphate‑inducible deoxyribose operon transcriptional repressor; repressor of nupG and tsx |
| RA | 894,155 | T→G | 100% | D124E (GAT→GAG) | potF → | putrescine ABC transporter periplasmic binding protein |
| RA | 905,720 | C→A | 67.0% | L270M (CTG→ATG) | amiD → | 1,6‑anhydro‑N‑acetylmuramyl‑L‑alanine amidase, Zn‑dependent; OM lipoprotein |
| RA | 922,316:1 | +C | 16.2% | intergenic (+23/+50) | macB → / ← cspD | macrolide ABC transporter peremase/ATPase/inhibitor of DNA replication, cold shock protein homolog |
| RA | 931,952 | C→T | 68.4% | V33V (GTG→GTA) | trxB ← | thioredoxin reductase, FAD/NAD(P)‑binding |
| RA | 933,387 | C→T | 68.0% | A55V (GCC→GTC) | ftsK → | DNA translocase at septal ring sorting daughter chromsomes |
| RA | 966,368 | A→G | 69.7% | A683A (GCA→GCG) | ycaI → | ComEC family inner membrane protein |
| RA | 975,083 | T→A | 63.4% | D255E (GAT→GAA) | mukF → | chromosome condensin MukBEF, kleisin‑like subunit, binds calcium |
| RA | 1,031,761 | T→C | 24.9% | intergenic (‑49/‑378) | serT ← / → hyaA | tRNA‑Ser/hydrogenase 1, small subunit |
| RA | 1,073,307 | Δ1 bp | 100% | coding (705/1149 nt) | rutA ← | pyrimidine oxygenase, FMN‑dependent |
| RA | 1,097,209 | T→G | 100% | intergenic (+380/+356) | ycdU → / ← serX | putative inner membrane protein/tRNA‑Ser |
| RA | 1,100,233 | G→A | 100% | intergenic (+39/‑63) | ycdY → / → ycdZ | redox enzyme maturation protein (REMP) chaperone for YcdX/DUF1097 family inner membrane protein |
| RA | 1,111,377 | A→G | 57.6% | D172G (GAT→GGT) | opgH → | OPG biosynthetic ACP‑dependent transmembrane UDP‑glucose beta‑1,2 glycosyltransferase; nutrient‑dependent cell size regulator, FtsZ assembly antagonist |
| RA | 1,143,125 | C→T | 100% | D415N (GAC→AAC) | rne ← | endoribonuclease; RNA‑binding protein;RNA degradosome binding protein |
| RA | 1,169,380 | T→C | 16.1% | intergenic (+50/+32) | bhsA → / ← ldtC | biofilm, cell surface and signaling protein/L,D‑transpeptidase linking Lpp to murein |
| RA | 1,169,382 | C→G | 16.0% | intergenic (+52/+30) | bhsA → / ← ldtC | biofilm, cell surface and signaling protein/L,D‑transpeptidase linking Lpp to murein |
| RA | 1,169,384 | G→A | 16.9% | intergenic (+54/+28) | bhsA → / ← ldtC | biofilm, cell surface and signaling protein/L,D‑transpeptidase linking Lpp to murein |
| RA | 1,170,338 | (A)6→5 | 100% | coding (37/963 nt) | ldtC ← | L,D‑transpeptidase linking Lpp to murein |
| RA | 1,172,553 | A→G | 30.9% | I471T (ATC→ACC) | mfd ← | transcription‑repair coupling factor |
| RA | 1,197,340 | T→C | 63.0% | T65A (ACT→GCT) | ymfD ← | e14 prophage; putative SAM‑dependent methyltransferase |
| RA | 1,197,739 | A→G | 100% | S167P (TCC→CCC) | ymfE ← | e14 prophage; putative inner membrane protein |
| RA | 1,207,981 | G→A | 58.8% | A161T (GCC→ACC) | stfP → | e14 prophage; uncharacterized protein |
| RA | 1,254,980 | A→G | 23.3% | F325L (TTT→CTT) | ycgV ← | putative adhesin |
| RA | 1,292,944 | T→C | 100% | intergenic (‑22/‑583) | hns ← / → tdk | global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase |
| RA | 1,307,634 | T→A | 48.0% | I338F (ATC→TTC) | clsA ← | cardiolipin synthase 1 |
| RA | 1,325,850 | C→T | 18.2% | R369C (CGC→TGC) | yciQ → | enhancer of membrane protein expression; putative inner membrane protein |
| RA | 1,344,033 | A→G | 16.0% | L105P (CTG→CCG) | yciT ← | global regulator of transcription; DeoR family |
| RA | 1,344,036 | G→C | 15.9% | T104S (ACT→AGT) | yciT ← | global regulator of transcription; DeoR family |
| RA | 1,344,039 | C→T | 15.6% | R103Q (CGG→CAG) | yciT ← | global regulator of transcription; DeoR family |
| RA | 1,369,793 | G→A | 58.9% | E35E (GAG→GAA) | pspE → | thiosulfate:cyanide sulfurtransferase (rhodanese) |
| RA | 1,382,820 | T→C | 62.1% | Y292H (TAT→CAT) | ompG → | outer membrane porin G |
| RA | 1,401,844 | A→G | 100% | I471T (ATC→ACC) | abgB ← | p‑aminobenzoyl‑glutamate hydrolase, B subunit |
| RA | 1,407,859 | A→G | 63.1% | intergenic (‑64/‑191) | ydaM ← / → ydaN | diguanylate cyclase, csgD regulator/putative Zn(II) transporter |
| RA | 1,433,718 | T→C | 100% | intergenic (‑44/+273) | pinR ← / ← ynaE | Rac prophage; putative site‑specific recombinase/cold shock protein, Rac prophage |
| RA | 1,434,459 | C→T | 100% | intergenic (‑235/+499) | ynaE ← / ← ttcC | cold shock protein, Rac prophage/pseudogene, prophage Rac integration site ttcA duplication;Phage or Prophage Related |
| RA | 1,446,357:1 | +T | 15.2% | intergenic (+151/+21) | ydbL → / ← feaR | DUF1318 family protein/transcriptional activator for tynA and feaB |
| RA | 1,446,362 | Δ1 bp | 16.0% | intergenic (+156/+16) | ydbL → / ← feaR | DUF1318 family protein/transcriptional activator for tynA and feaB |
| RA | 1,448,947 | A→C | 62.4% | T477P (ACG→CCG) | feaB → | phenylacetaldehyde dehydrogenase |
| RA | 1,449,050 | T→A | 15.1% | intergenic (+32/+26) | feaB → / ← tynA | phenylacetaldehyde dehydrogenase/tyramine oxidase, copper‑requiring |
| RA | 1,470,558 | G→A | 55.9% | pseudogene (42/3497 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,493,774 | A→G | 62.1% | L435L (TTA→TTG) | trg → | methyl‑accepting chemotaxis protein III, ribose and galactose sensor receptor |
| RA | 1,501,912 | T→A | 100% | I117I (ATT→ATA) | tehB → | tellurite, selenium methyltransferase, SAM‑dependent; tellurite, selenium resistance protein |
| RA | 1,530,076:1 | (A)7→8 | 100% | coding (155/483 nt) | ydcD → | putative immunity protein for RhsE |
| RA | 1,547,395 | A→G | 66.0% | intergenic (‑226/‑6) | yddG ← / → fdnG | aromatic amino acid exporter/formate dehydrogenase‑N, alpha subunit, nitrate‑inducible |
| RA | 1,555,324 | A→G | 55.1% | S116P (TCT→CCT) | maeA ← | malate dehydrogenase, decarboxylating, NAD‑requiring; malic enzyme |
| RA | 1,580,094 | C→T | 100% | D233N (GAT→AAT) | ydeM ← | putative YdeN‑specific sulfatase‑maturating enzyme |
| RA | 1,628,638 | C→A | 15.4% | A96E (GCG→GAG) | rspR → | transcriptional repressor for rspAB |
| RA | 1,642,370 | C→G | 17.0% | intergenic (+303/+119) | cspF → / ← quuQ | Qin prophage; cold shock protein/Qin prophage; putative antitermination protein Q |
| RA | 1,642,373 | C→G | 17.0% | intergenic (+306/+116) | cspF → / ← quuQ | Qin prophage; cold shock protein/Qin prophage; putative antitermination protein Q |
| RA | 1,650,904 | T→C | 51.1% | pseudogene (60/693 nt) | insD1 → | IS2 transposase TnpB;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 1,658,592 | C→T | 49.5% | A175V (GCC→GTC) | ynfE → | putative selenate reductase, periplasmic |
| RA | 1,665,195:1 | (T)7→8 | 100% | intergenic (+75/‑120) | dmsD → / → clcB | twin‑argninine leader‑binding protein for DmsA and TorA/H(+)/Cl(‑) exchange transporter |
| RA | 1,681,932 | T→C | 100% | P33P (CCA→CCG) | ydgC ← | GlpM family inner membrane protein |
| RA | 1,707,029 | A→G | 56.7% | V37V (GTA→GTG) | rsxC → | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| RA | 1,712,306:1 | (T)7→8 | 100% | intergenic (+148/‑463) | nth → / → dtpA | DNA glycosylase and apyrimidinic (AP) lyase (endonuclease III)/dipeptide and tripeptide permease A |
| RA | 1,712,518 | (C)6→5 | 100% | intergenic (+360/‑251) | nth → / → dtpA | DNA glycosylase and apyrimidinic (AP) lyase (endonuclease III)/dipeptide and tripeptide permease A |
| RA | 1,728,444 | C→A | 100% | T33N (ACC→AAC) | rnt → | RNase T; exoribonuclease T; structured DNA 3' exonuclease; RNA processing; DNA repair |
| RA | 1,736,097 | T→A | 16.2% | intergenic (+138/+24) | sodB → / ← ydhP | superoxide dismutase, Fe/putative MFS transporter, inner membrane protein |
| RA | 1,736,100 | T→A | 16.0% | intergenic (+141/+21) | sodB → / ← ydhP | superoxide dismutase, Fe/putative MFS transporter, inner membrane protein |
| RA | 1,827,031 | T→A | 100% | D410V (GAT→GTT) | astB ← | succinylarginine dihydrolase |
| RA | 1,880,549 | T→C | 26.4% | T71A (ACC→GCC) | leuE ← | leucine efflux protein |
| RA | 1,946,790 | T→G | 60.1% | G180G (GGT→GGG) | yebB → | DUF830 family protein |
| RA | 1,971,761 | T→C | 57.8% | T311A (ACC→GCC) | tar ← | methyl‑accepting chemotaxis protein II |
| MC JC | 1,978,503 | Δ776 bp | 100% | insB1–insA | insB1, insA | |
| RA | 1,983,761 | C→T | 100% | E437K (GAA→AAA) | araG ← | L‑arabinose ABC transporter ATPase |
| RA | 2,028,158 | G→C | 15.3% | intergenic (‑141/+30) | yedQ ← / ← yodC | putative membrane‑anchored diguanylate cyclase/uncharacterized protein |
| RA | 2,028,159 | T→A | 15.3% | intergenic (‑142/+29) | yedQ ← / ← yodC | putative membrane‑anchored diguanylate cyclase/uncharacterized protein |
| RA | 2,028,160 | G→C | 15.4% | intergenic (‑143/+28) | yedQ ← / ← yodC | putative membrane‑anchored diguanylate cyclase/uncharacterized protein |
| RA | 2,062,022 | A→C | 22.7% | intergenic (‑89/‑238) | nac ← / → asnV | nitrogen assimilation regulon transcriptional regulator; autorepressor/tRNA‑Asn |
| RA | 2,071,321 | A→G | 100% | intergenic (+110/‑218) | yeeP → / → flu | pseudogene, CP4‑44 prophage; 50S ribosome‑binding GTPase family;Phage or Prophage Related; putative histone/CP4‑44 prophage; antigen 43 (Ag43) phase‑variable biofilm formation autotransporter |
| RA | 2,140,400 | G→A | 15.1% | R405W (CGG→TGG) | asmA ← | suppressor of OmpF assembly mutants; putative outer membrane protein assembly factor; inner membrane‑anchored periplasmic protein |
| RA | 2,140,401 | T→C | 15.2% | P404P (CCA→CCG) | asmA ← | suppressor of OmpF assembly mutants; putative outer membrane protein assembly factor; inner membrane‑anchored periplasmic protein |
| RA | 2,159,354 | C→T | 65.0% | R323R (CGC→CGT) | mdtC → | multidrug efflux system, subunit C |
| RA | 2,161,946 | A→G | 58.8% | A161A (GCA→GCG) | iceT → | putative citrate/iron‑citrate/zinc‑citrate efflux transporter |
| RA | 2,173,076 | C→A | 71.3% | pseudogene (287/442 nt) | gatC ← | pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC |
| RA | 2,173,363 | Δ2 bp | 100% | 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 | 2,191,432 | C→T | 100% | G72S (GGC→AGC) | yehC ← | putative periplasmic pilin chaperone |
| RA | 2,197,365 | G→A | 72.0% | pseudogene (892/2847 nt) | yehH → | DUF4132 family pseudogene; defective yehI paralog; molybdate metabolism regulator, first fragment; molybdate metabolism regulator, second fragment 2; yehI' molR mutations have phenotypes and the N‑terminal molR fragment of yehI' may be expressed and may have retained or evolved MolR function |
| RA | 2,210,811 | C→T | 100% | pseudogene (1712/2001 nt) | yehQ → | pseudogene |
| RA | 2,235,656 | T→C | 63.8% | I131T (ATC→ACC) | preA → | dihydropyrimidine dehydrogenase, NADH‑dependent, subunit C |
| RA | 2,246,800 | A→G | 60.5% | intergenic (‑31/+263) | cirA ← / ← lysP | colicin IA outer membrane receptor and translocator; ferric iron‑catecholate transporter/lysine transporter |
| RA | 2,278,298 | C→T | 100% | intergenic (‑61/+272) | yejG ← / ← bcr | uncharacterized protein/bicyclomycin/cysteine/sulfonamide efflux transporter |
| RA | 2,291,084 | A→C | 27.4% | K195N (AAA→AAC) | narP → | response regulator in two‑component regulatory system with NarQ |
| RA | 2,307,386 | A→T | 65.0% | D410E (GAT→GAA) | yojI ← | microcin J25 efflux ABC transporter permease/ATPase |
| RA | 2,311,616 | C→T | 15.5% | intergenic (‑82/+30) | apbE ← / ← ompC | putative thiamine‑synthetic flavin transferase lipoprotein/outer membrane porin protein C |
| RA | 2,311,619 | A→G | 15.4% | intergenic (‑85/+27) | apbE ← / ← ompC | putative thiamine‑synthetic flavin transferase lipoprotein/outer membrane porin protein C |
| RA | 2,352,993 | T→A | 32.5% | I116N (ATC→AAC) | glpA → | anaerobic sn‑glycerol‑3‑phosphate dehydrogenase, large FAD/NAD(P)‑binding subunit |
| RA | 2,386,365 | T→A | 76.5% | F169Y (TTC→TAC) | yfbL → | putative M28A family peptidase |
| RA | 2,411,637 | Δ1 bp | 100% | coding (453/651 nt) | yfbT ← | sugar phosphatas |
| RA | 2,420,727 | G→A | 66.6% | G36D (GGC→GAC) | yfcG → | GSH‑dependent disulfide bond oxidoreductase |
| RA | 2,436,937 | A→T | 100% | D305E (GAT→GAA) | pdxB ← | erythronate‑4‑phosphate dehydrogenase |
| RA | 2,452,339 | A→G | 24.0% | intergenic (‑3/+17) | yfcS ← / ← yfcU | putative periplasmic pilin chaperone/pseudogene, FimD fimbrial export usher family;putative membrane; Not classified; putative outer membrane protein |
| RA | 2,469,656:1 | (T)7→8 | 100% | coding (526/1332 nt) | gtrS → | serotype‑specific glucosyl transferase, CPS‑53 (KpLE1) prophage |
| RA | 2,521,967 | C→A | 100% | A171S (GCG→TCG) | xapR ← | transcriptional activator of xapAB |
| RA | 2,525,135 | (A)6→5 | 100% | coding (9/765 nt) | yfeN → | putative outer membrane protein |
| RA | 2,530,925 | T→C | 68.8% | Q103Q (CAA→CAG) | zipA ← | FtsZ stabilizer |
| RA | 2,534,206 | T→G | 100% | R47R (CGT→CGG) | ptsI → | PEP‑protein phosphotransferase of PTS system (enzyme I) |
| RA | 2,541,456 | A→G | 60.4% | I75T (ATT→ACT) | cysW ← | sulfate/thiosulfate ABC transporter permease |
| RA | 2,563,518:1 | (A)5→6 | 100% | intergenic (+401/‑74) | yffP → / → yffQ | CPZ‑55 prophage; uncharacterized protein/CPZ‑55 prophage; uncharacterized protein |
| RA | 2,564,525 | G→A | 100% | M1M (ATG→ATA) † | yffS → | CPZ‑55 prophage; uncharacterized protein |
| RA | 2,593,917 | G→A | 60.8% | A648V (GCG→GTG) | tmcA ← | elongator methionine tRNA (ac4C34) acetyltransferase |
| RA | 2,600,288 | C→T | 100% | S128L (TCG→TTG) | gcvR → | transcriptional repressor, regulatory protein accessory to GcvA |
| RA | 2,638,037 | C→A | 67.6% | A206S (GCG→TCG) | bamB ← | BamABCDE complex OM biogenesis lipoprotein |
| RA | 2,712,402 | A→G | 21.3% | S121S (AGT→AGC) | trmN ← | tRNA1(Val) (adenine(37)‑N6)‑methyltransferase |
| RA | 2,767,667 | T→G | 16.8% | intergenic (+312/‑43) | rnlB → / → yfjP | CP4‑57 prophage; uncharacterized protein/CP4‑57 prophage; 50S ribosome‑binding GTPase family protein |
| RA | 2,767,670 | C→A | 15.8% | intergenic (+315/‑40) | rnlB → / → yfjP | CP4‑57 prophage; uncharacterized protein/CP4‑57 prophage; 50S ribosome‑binding GTPase family protein |
| RA | 2,777,363 | T→C | 62.5% | F83F (TTT→TTC) | yfjZ → | CP4‑57 prophage; antitoxin of the YpjF‑YfjZ toxin‑antitoxin system |
| RA | 2,782,883 | G→A | 25.3% | intergenic (‑157/+182) | ypjA ← / ← pinH | adhesin‑like autotransporter/pseudogene, invertase resolvase family |
| RA | 2,810,756 | G→A | 100% | intergenic (+77/‑14) | ygaH → / → mprA | putative L‑valine exporter, norvaline resistance protein/transcriptional repressor of microcin B17 synthesis and multidrug efflux |
| RA | 2,852,356 | T→A | 100% | L74Q (CTG→CAG) | hypD → | hydrogenase maturation protein |
| RA | 2,867,151 | A→G | 27.2% | F134S (TTT→TCT) | rpoS ← | RNA polymerase, sigma S (sigma 38) factor |
| RA | 2,867,164 | C→T | 62.9% | A130T (GCG→ACG) | rpoS ← | RNA polymerase, sigma S (sigma 38) factor |
| RA | 2,887,352 | T→A | 100% | intergenic (‑133/+226) | ygcB ← / ← cysH | Cascade complex anti‑viral R‑loop helicase‑annealase Cas3/phosphoadenosine phosphosulfate reductase; PAPS reductase, thioredoxin dependent |
| RA | 3,041,028 | G→A | 67.4% | R15C (CGT→TGT) | sdhE ← | flavinator of succinate dehydrogenase; antitoxin of CptAB toxin‑antitoxin pair |
| RA | 3,150,120 | T→C | 66.9% | F153F (TTT→TTC) | yghA → | putative oxidoreductase |
| RA | 3,165,015 | T→A | 61.4% | D320V (GAT→GTT) | parC ← | DNA topoisomerase IV, subunit A |
| RA | 3,218,198 | C→T | 19.4% | Q293Q (CAG→CAA) | aer ← | fused signal transducer for aerotaxis sensory component/methyl accepting chemotaxis component |
| RA | 3,291,109 | A→T | 16.7% | K766* (AAA→TAA) ‡ | yraJ → | putative outer membrane protein |
| RA | 3,291,110 | A→T | 16.7% | K766I (AAA→ATA) ‡ | yraJ → | putative outer membrane protein |
| RA | 3,443,086 | T→A | 18.8% | N338Y (AAC→TAC) | secY ← | preprotein translocase membrane subunit |
| RA | 3,452,057 | A→T | 100% | I77N (ATC→AAC) | rplD ← | 50S ribosomal subunit protein L4 |
| RA | 3,471,357 | C→T | 15.6% | intergenic (‑28/+43) | tufA ← / ← fusA | translation elongation factor EF‑Tu 1/protein chain elongation factor EF‑G, GTP‑binding |
| RA | 3,471,361 | T→G | 16.0% | intergenic (‑32/+39) | tufA ← / ← fusA | translation elongation factor EF‑Tu 1/protein chain elongation factor EF‑G, GTP‑binding |
| RA | 3,477,434 | T→C | 63.8% | intergenic (‑15/‑206) | fkpA ← / → slyX | FKBP‑type peptidyl‑prolyl cis‑trans isomerase (rotamase)/phi X174 lysis protein |
| RA | 3,524,413 | A→G | 65.0% | I515V (ATT→GTT) | mrcA → | penicillin‑binding protein 1a, murein transglycosylase and transpeptidase |
| RA | 3,560,455:1 | +G | 100% | 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 | 3,622,796 | T→G | 100% | L1202R (CTG→CGG) | rhsB → | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| RA | 3,648,042 | T→C | 100% | intergenic (‑254/‑486) | dinQ ← / → arsR | UV‑inducible membrane toxin, DinQ‑AgrB type I toxin‑antitoxin system/arsenical resistance operon transcriptional repressor; autorepressor |
| RA | 3,669,340 | A→G | 60.0% | intergenic (‑152/‑252) | yhjA ← / → treF | putative cytochrome C peroxidase/cytoplasmic trehalase |
| RA | 3,669,920 | A→G | 71.5% | E110G (GAA→GGA) | treF → | cytoplasmic trehalase |
| RA | 3,705,970 | G→A | 24.8% | intergenic (‑180/+128) | dppB ← / ← dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| RA | 3,705,971 | C→A | 24.1% | intergenic (‑181/+127) | dppB ← / ← dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| RA | 3,705,984 | T→G | 33.8% | intergenic (‑194/+114) | dppB ← / ← dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| RA | 3,705,985 | T→C | 33.7% | intergenic (‑195/+113) | dppB ← / ← dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| RA | 3,736,609 | G→A | 21.8% | P190L (CCA→CTA) | bax ← | putative glucosaminidase |
| RA | 3,770,087 | C→A | 67.4% | pseudogene (55/114 nt) | yibU → | pseudogene, H repeat‑associated protein |
| RA | 3,805,475 | T→C | 35.0% | N159S (AAT→AGT) | waaP ← | kinase that phosphorylates core heptose of lipopolysaccharide |
| RA | 3,840,547 | T→C | 64.3% | intergenic (+39/+2) | yicS → / ← nepI | putative periplasmic protein/putative transporter |
| RA | 3,853,909 | A→G | 100% | intergenic (+267/‑13) | tisB → / → emrD | toxic membrane persister formation peptide, LexA‑regulated/multidrug efflux system protein |
| RA | 3,910,662 | A→T | 100% | D288E (GAT→GAA) | pstS ← | phosphate ABC transporter periplasmic binding protein |
| RA | 3,927,735 | Δ1 bp | 50.4% | coding (581/993 nt) | asnA → | asparagine synthetase A |
| RA | 3,950,467 | G→T | 16.0% | intergenic (+47/‑40) | ilvL → / → ilvX | ilvG operon leader peptide/uncharacterized protein |
| RA | 3,950,468 | G→T | 100% | intergenic (+48/‑39) | ilvL → / → ilvX | ilvG operon leader peptide/uncharacterized protein |
| RA | 3,971,690 | A→C | 100% | Q144P (CAG→CCG) | wecC → | UDP‑N‑acetyl‑D‑mannosaminuronic acid dehydrogenase |
| RA | 3,980,726 | G→A | 15.0% | intergenic (+30/‑161) | wecG → / → yifK | UDP‑N‑acetyl‑D‑mannosaminuronic acid transferase/putative APC family amino acid transporter |
| RA | 4,015,333 | A→T | 17.7% | intergenic (+19/+21) | metE → / ← ysgA | 5‑methyltetrahydropteroyltriglutamate‑ homocysteine S‑methyltransferase/putative carboxymethylenebutenolidase |
| RA | 4,049,986 | G→T | 17.5% | intergenic (+234/+147) | polA → / ← yihA | 5' to 3' DNA polymerase and 3' to 5'/5' to 3' exonuclease/cell division GTP‑binding protein |
| RA | 4,049,989 | A→C | 16.0% | intergenic (+237/+144) | polA → / ← yihA | 5' to 3' DNA polymerase and 3' to 5'/5' to 3' exonuclease/cell division GTP‑binding protein |
| RA | 4,098,512 | C→A | 66.5% | R259R (CGC→CGA) | rhaS → | transcriptional activator of rhaBAD and rhaT |
| RA | 4,168,540 | T→A | 100% | intergenic (+93/‑101) | gltT → / → rrlB | tRNA‑Glu/23S ribosomal RNA of rrnB operon |
| RA | 4,235,689:1 | +A | 100% | intergenic (+282/‑217) | pgi → / → yjbE | glucosephosphate isomerase/extracellular polysaccharide production threonine‑rich protein |
| JC | 4,242,942 | Δ66 bp | 100% | coding (510‑575/891 nt) | malG ← | maltose transporter subunit |
| RA | 4,279,370 | G→T | 56.2% | A298S (GCA→TCA) | ghxP → | guanine/hypoxanthine permease, high affinity; guanine/hypoxanthine:H+ symporter |
| RA | 4,289,526 | A→G | 64.4% | K94K (AAA→AAG) | nrfB → | nitrite reductase, formate‑dependent, penta‑heme cytochrome c |
| RA | 4,296,060 | C→T | 33.8% | intergenic (+266/+376) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,296,381:1 | +GC | 100% | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,340,287 | G→A | 65.0% | L79F (CTT→TTT) | adiA ← | arginine decarboxylase |
| RA | 4,352,460 | T→G | 67.3% | intergenic (+103/‑124) | yjdJ → / → ghoS | GNAT family putative N‑acetyltransferase/antitoxin of GhoTS toxin‑antitoxin pair; endonuclease for ghoT mRNA |
| RA | 4,360,814 | T→G | 51.1% | Y374S (TAC→TCC) | cadC ← | cadBA operon transcriptional activator |
| RA | 4,434,437 | T→A | 23.8% | W109R (TGG→AGG) | ytfH → | DUF24 family HxlR‑type putative transcriptional regulator |
| RA | 4,478,879 | T→C | 67.0% | V136A (GTT→GCT) | rraB → | protein inhibitor of RNase E |
| RA | 4,490,055 | T→G | 100% | E3D (GAA→GAC) | yjgR ← | DUF853 family protein with NTPase fold |
| RA | 4,500,814 | Δ1 bp | 100% | intergenic (‑23/‑446) | yjgX ← / → yjgZ | pseudogene fragment/uncharacterized protein |
| RA | 4,547,319 | C→A | 67.5% | R742S (CGT→AGT) | fimD → | fimbrial usher outer membrane porin protein; FimCD chaperone‑usher |
| RA | 4,560,045 | C→A | 22.8% | W212C (TGG→TGT) | yjiH ← | nucleoside recognition pore and gate family putative inner membrane transporter |
| RA | 4,568,688 | C→A | 20.3% | intergenic (‑169/‑310) | mdtM ← / → yjiP | multidrug efflux system protein/pseudogene, transposase_31 family protein |
| RA | 4,615,859 | T→G | 100% | T403P (ACC→CCC) | yjjI ← | DUF3029 family protein, putative glycine radical enzyme |
| RA | 4,631,700 | T→C | 100% | L323P (CTT→CCT) | slt → | lytic murein transglycosylase, soluble |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3423711–3424235 | 3424595–3424238 | 4–885 | 64 [63] | [63] 66 | [rrfD]–[rrlD] | [rrfD], [rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 16653 | NA (NA) | 10 (0.090) | 9/164 | NT | NA | noncoding (1267/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | = 16691 | NA (NA) | noncoding (1305/1345 nt) | IS186 | repeat region | |||||
| * | ? | NC_000913 | = 20474 | NA (NA) | 18 (0.150) | 6/168 | NT | NA | noncoding (90/768 nt) | IS1 | repeat region |
| ? | NC_000913 | = 20485 | NA (NA) | noncoding (79/768 nt) | IS1 | repeat region | |||||
| * | ? | NC_000913 | = 72190 | NA (NA) | 8 (0.070) | 7/164 | NT | NA | noncoding (55/85 nt) | REP7 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP7 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | = 72220 | NA (NA) | noncoding (85/85 nt) | REP7 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP7 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | 224059 = | NA (NA) | 41 (0.360) | 14/164 | NT | NA | noncoding (289/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 224082 = | NA (NA) | noncoding (312/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | 225078 = | NA (NA) | 46 (0.400) | 13/164 | NT | NA | noncoding (1308/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 225100 = | NA (NA) | noncoding (1330/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | 225154 = | NA (NA) | 22 (0.190) | 15/168 | NT | NA | noncoding (1384/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 225176 = | NA (NA) | noncoding (1406/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 227444 | NA (NA) | 16 (0.140) | 9/168 | NT | NA | noncoding (1686/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 227459 | NA (NA) | noncoding (1701/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | 228016 = | NA (NA) | 39 (0.340) | 16/164 | NT | NA | noncoding (2258/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 228041 = | NA (NA) | noncoding (2283/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 228108 | NA (NA) | 32 (0.270) | 11/170 | NT | NA | noncoding (2350/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 228124 | NA (NA) | noncoding (2366/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 228224 | NA (NA) | 20 (0.170) | 10/166 | NT | NA | noncoding (2466/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 228241 | NA (NA) | noncoding (2483/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 228241 | NA (NA) | 5 (0.040) | 5/170 | NT | NA | noncoding (2483/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 228262 | NA (NA) | noncoding (2504/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | 228721 = | NA (NA) | 27 (0.230) | 8/166 | NT | NA | intergenic (+59/‑35) | rrlH/rrfH | 23S ribosomal RNA of rrnH operon/5S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 228745 = | NA (NA) | intergenic (+83/‑11) | rrlH/rrfH | 23S ribosomal RNA of rrnH operon/5S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | 274384 = | NA (NA) | 11 (0.090) | 5/172 | NT | NA | noncoding (766/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274422 = | NA (NA) | noncoding (728/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 274525 = | NA (NA) | 7 (0.060) | 4/164 | NT | NA | noncoding (625/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274559 = | NA (NA) | noncoding (591/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 274620 = | NA (NA) | 13 (0.120) | 9/160 | NT | NA | noncoding (530/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274663 = | NA (NA) | noncoding (487/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 274965 = | NA (NA) | 16 (0.130) | 7/172 | NT | NA | noncoding (185/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274991 = | NA (NA) | noncoding (159/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 277706 | NA (NA) | 9 (0.080) | 6/164 | NT | NA | noncoding (32/67 nt) | REP22 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP22 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | = 277737 | NA (NA) | noncoding (63/67 nt) | REP22 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP22 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | = 315572 | NA (NA) | 11 (0.100) | 6/158 | NT | NA | noncoding (344/1255 nt) | IS3 | repeat region |
| ? | NC_000913 | = 315588 | NA (NA) | noncoding (360/1255 nt) | IS3 | repeat region | |||||
| * | ? | NC_000913 | 315642 = | NA (NA) | 20 (0.170) | 12/168 | NT | NA | noncoding (414/1255 nt) | IS3 | repeat region |
| ? | NC_000913 | 315671 = | NA (NA) | noncoding (443/1255 nt) | IS3 | repeat region | |||||
| * | ? | NC_000913 | 315892 = | NA (NA) | 12 (0.100) | 5/172 | NT | NA | noncoding (664/1255 nt) | IS3 | repeat region |
| ? | NC_000913 | 315923 = | NA (NA) | noncoding (695/1255 nt) | IS3 | repeat region | |||||
| * | ? | NC_000913 | = 346823 | NA (NA) | 8 (0.070) | 8/168 | NT | NA | intergenic (+64/+34) | yahO/prpR | periplasmic protein, function unknown, YhcN family/propionate catabolism operon regulatory protein |
| ? | NC_000913 | = 346853 | NA (NA) | noncoding (30/30 nt) | REP24 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP24 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||
| * | ? | NC_000913 | = 349759 | 108 (0.880) | 21 (0.180) | 5/164 | NT | 17.5% | noncoding (155/365 nt) | REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences | REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences |
| ? | NC_000913 | = 349776 | 99 (0.870) | noncoding (172/365 nt) | REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences | REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences | |||||
| * | ? | NC_000913 | = 381669 | NA (NA) | 28 (0.250) | 10/164 | NT | NA | noncoding (410/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 381695 | NA (NA) | noncoding (436/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 381910 | NA (NA) | 27 (0.230) | 10/166 | NT | NA | noncoding (651/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 381923 | NA (NA) | noncoding (664/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 382211 | NA (NA) | 56 (0.480) | 19/168 | NT | NA | noncoding (952/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 382218 | NA (NA) | noncoding (959/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 382282 = | NA (NA) | 22 (0.190) | 11/166 | NT | NA | noncoding (1023/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 382313 = | NA (NA) | noncoding (1054/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 526259 = | NA (NA) | 9 (0.080) | 6/168 | NT | 100% | coding (2999/4281 nt) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | 526275 = | 0 (0.000) | coding (3015/4281 nt) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | = 705938 | NA (NA) | 9 (0.080) | 6/166 | NT | NA | intergenic (+48/‑155) | nagE/glnS | N‑acetyl glucosamine specific PTS enzyme IIC, IIB, and IIA components/glutamyl‑tRNA synthetase |
| ? | NC_000913 | = 705965 | NA (NA) | intergenic (+75/‑128) | nagE/glnS | N‑acetyl glucosamine specific PTS enzyme IIC, IIB, and IIA components/glutamyl‑tRNA synthetase | |||||
| * | ? | NC_000913 | 707773 = | NA (NA) | 10 (0.090) | 9/160 | NT | NA | noncoding (4/165 nt) | RIP63 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | RIP63 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site |
| ? | NC_000913 | 707805 = | NA (NA) | noncoding (36/165 nt) | RIP63 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | RIP63 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | = 730045 | NA (NA) | 16 (0.140) | 10/168 | NT | NA | coding (463/4194 nt) | rhsC | Rhs protein with putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | = 730067 | NA (NA) | coding (485/4194 nt) | rhsC | Rhs protein with putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | 832289 = | NA (NA) | 5 (0.040) | 5/164 | NT | NA | noncoding (1/98 nt) | RIP75 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP75 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913 | 832314 = | NA (NA) | noncoding (26/98 nt) | RIP75 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP75 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | = 1207805 | 84 (0.680) | 24 (0.240) | 22/146 | NT | 26.6% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 64 (0.630) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 111 (0.940) | 79/170 | NT | 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 | |||||
| * | ? | NC_000913 | = 1394105 | 72 (0.580) | 15 (0.120) | 12/178 | NT | 17.2% | coding (879/1614 nt) | mppA | murein tripeptide (L‑ala‑gamma‑D‑glutamyl‑meso‑DAP) transporter subunit |
| ? | NC_000913 | 1396044 = | NA (NA) | noncoding (1/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 1534883 = | NA (NA) | 13 (0.120) | 11/162 | NT | NA | noncoding (1/75 nt) | REP118 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP118 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | 1534913 = | NA (NA) | noncoding (31/75 nt) | REP118 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP118 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | = 2077186 | 101 (0.820) | 17 (0.150) | 11/162 | NT | 15.5% | coding (75/369 nt) | cbeA | CP4‑44 prophage; cytoskeleton bundling‑enhancing factor A; CbtA antitoxin |
| ? | NC_000913 | = 2077212 | 94 (0.840) | coding (101/369 nt) | cbeA | CP4‑44 prophage; cytoskeleton bundling‑enhancing factor A; CbtA antitoxin | |||||
| * | ? | NC_000913 | 2209050 = | 83 (0.670) | 17 (0.150) | 5/164 | NT | 18.5% | coding (1084/1137 nt) | yehP | VMA domain putative YehL ATPase stimulator |
| ? | NC_000913 | 2209081 = | 73 (0.640) | coding (1115/1137 nt) | yehP | VMA domain putative YehL ATPase stimulator | |||||
| * | ? | NC_000913 | = 2304590 | 109 (0.880) | 20 (0.180) | 9/164 | NT | 16.6% | noncoding (174/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences |
| ? | NC_000913 | = 2304721 | NA (NA) | noncoding (305/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | |||||
| * | ? | NC_000913 | = 2393130 | NA (NA) | 6 (0.050) | 6/164 | NT | NA | intergenic (‑89/+75) | nuoM/nuoL | NADH:ubiquinone oxidoreductase, membrane subunit M/NADH:ubiquinone oxidoreductase, membrane subunit L |
| ? | NC_000913 | = 2393162 | NA (NA) | noncoding (32/36 nt) | REP166 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP166 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||
| * | ? | NC_000913 | 2539608 = | NA (NA) | 5 (0.040) | 5/166 | NT | NA | noncoding (2/36 nt) | REP175 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP175 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | 2539638 = | NA (NA) | noncoding (32/36 nt) | REP175 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP175 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||
| * | ? | NC_000913 | 2568139 = | NA (NA) | 9 (0.080) | 6/164 | NT | NA | noncoding (1/183 nt) | REP178 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP178 (repetitive extragenic palindromic) element; contains 4 REP sequences |
| ? | NC_000913 | 2568169 = | NA (NA) | noncoding (31/183 nt) | REP178 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP178 (repetitive extragenic palindromic) element; contains 4 REP sequences | |||||
| * | ? | NC_000913 | 2728214 = | NA (NA) | 40 (0.340) | 14/170 | NT | NA | noncoding (971/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| ? | NC_000913 | 2728240 = | NA (NA) | noncoding (945/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | = 2729452 | NA (NA) | 10 (0.090) | 5/158 | NT | NA | intergenic (‑8/+164) | gltW/rrsG | tRNA‑Glu/16S ribosomal RNA of rrnG operon |
| ? | NC_000913 | = 2729474 | NA (NA) | intergenic (‑30/+142) | gltW/rrsG | tRNA‑Glu/16S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | 2808135 = | NA (NA) | 10 (0.090) | 6/164 | NT | NA | noncoding (5/84 nt) | REP193 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP193 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | 2808165 = | NA (NA) | noncoding (35/84 nt) | REP193 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP193 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | 2888334 = | NA (NA) | 11 (0.100) | 5/164 | NT | NA | noncoding (1/37 nt) | REP200 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP200 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | 2888367 = | NA (NA) | noncoding (34/37 nt) | REP200 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP200 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||
| * | ? | NC_000913 | 3139625 = | NA (NA) | 12 (0.110) | 9/164 | NT | NA | noncoding (5/83 nt) | REP221 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP221 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | 3139655 = | NA (NA) | noncoding (35/83 nt) | REP221 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP221 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | 3214896 = | NA (NA) | 7 (0.060) | 7/168 | NT | NA | noncoding (5/33 nt) | REP227 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP227 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | 3214925 = | NA (NA) | intergenic (+37/+42) | rpoD/mug | RNA polymerase, sigma 70 (sigma D) factor/G/U mismatch‑specific DNA glycosylase; xanthine DNA glycosylase | |||||
| * | ? | NC_000913 | 3231252 = | NA (NA) | 12 (0.110) | 6/164 | NT | NA | noncoding (1/283 nt) | REP231 (repetitive extragenic palindromic) element; contains 6 REP sequences | REP231 (repetitive extragenic palindromic) element; contains 6 REP sequences |
| ? | NC_000913 | 3231282 = | NA (NA) | noncoding (31/283 nt) | REP231 (repetitive extragenic palindromic) element; contains 6 REP sequences | REP231 (repetitive extragenic palindromic) element; contains 6 REP sequences | |||||
| * | ? | NC_000913 | 3281702 = | NA (NA) | 11 (0.100) | 5/164 | NT | NA | noncoding (1/82 nt) | REP239 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP239 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | 3281734 = | NA (NA) | noncoding (33/82 nt) | REP239 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP239 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | 3470277 = | NA (NA) | 17 (0.150) | 8/164 | NT | NA | coding (1053/1185 nt) | tufA | translation elongation factor EF‑Tu 1 |
| ? | NC_000913 | 3470311 = | NA (NA) | coding (1019/1185 nt) | tufA | translation elongation factor EF‑Tu 1 | |||||
| * | ? | NC_000913 | 3619655 = | NA (NA) | 8 (0.070) | 6/168 | NT | 100% | coding (464/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | 3619677 = | 0 (0.000) | coding (486/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | 3619878 = | NA (NA) | 16 (0.140) | 7/160 | NT | 100% | coding (687/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | 3619892 = | 0 (0.000) | coding (701/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | 3620123 = | NA (NA) | 4 (0.030) | 4/166 | NT | 100% | coding (932/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | 3620147 = | 0 (0.000) | coding (956/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | = 3620220 | NA (NA) | 12 (0.100) | 7/166 | NT | 100% | coding (1029/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | = 3620255 | 0 (0.000) | coding (1064/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | 3620569 = | NA (NA) | 28 (0.240) | 10/166 | NT | 100% | coding (1378/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | 3620582 = | 0 (0.000) | coding (1391/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | 3666120 = | 132 (1.070) | 19 (0.190) | 7/148 | NT | 15.8% | intergenic (‑310/+60) | gadX/gadA | acid resistance regulon transcriptional activator; autoactivator/glutamate decarboxylase A, PLP‑dependent |
| ? | NC_000913 | 3666163 = | 93 (0.910) | intergenic (‑353/+17) | gadX/gadA | acid resistance regulon transcriptional activator; autoactivator/glutamate decarboxylase A, PLP‑dependent | |||||
| * | ? | NC_000913 | 3754860 = | NA (NA) | 6 (0.050) | 4/164 | NT | NA | noncoding (1/82 nt) | REP270 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP270 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | 3754890 = | NA (NA) | noncoding (31/82 nt) | REP270 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP270 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | 3898629 = | NA (NA) | 11 (0.100) | 7/162 | NT | NA | intergenic (+20/+42) | cbrC/yieK | UPF0167 family protein/putative 6‑phosphogluconolactonase |
| ? | NC_000913 | 3898659 = | NA (NA) | intergenic (+50/+12) | cbrC/yieK | UPF0167 family protein/putative 6‑phosphogluconolactonase | |||||
| * | ? | NC_000913 | 3962704 = | NA (NA) | 6 (0.050) | 6/166 | NT | NA | noncoding (5/36 nt) | REP286 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP286 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | 3962736 = | NA (NA) | intergenic (+38/+9) | rep/gpp | DNA helicase and single‑stranded DNA‑dependent ATPase/guanosine pentaphosphatase/exopolyphosphatase | |||||
| * | ? | NC_000913 | 4008401 = | NA (NA) | 9 (0.080) | 8/164 | NT | NA | noncoding (5/34 nt) | REP289 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP289 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | 4008431 = | NA (NA) | intergenic (+54/+8) | rhtC/rhtB | threonine efflux pump/homoserine, homoserine lactone and S‑methyl‑methionine efflux pump | |||||
| * | ? | NC_000913 | = 4094625 | 137 (1.110) | 26 (0.230) | 6/164 | NT | 17.1% | noncoding (310/402 nt) | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | NC_000913 | = 4094687 | NA (NA) | noncoding (372/402 nt) | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | |||||
| * | ? | NC_000913 | = 4168341 | 10 (0.080) | 12 (0.110) | 9/158 | NT | 57.5% | intergenic (+141/‑31) | rrsB/gltT | 16S ribosomal RNA of rrnB operon/tRNA‑Glu |
| ? | NC_000913 | = 4168363 | NA (NA) | intergenic (+163/‑9) | rrsB/gltT | 16S ribosomal RNA of rrnB operon/tRNA‑Glu | |||||
| * | ? | NC_000913 | = 4171607 | 28 (0.230) | 83 (0.720) | 17/166 | NT | 76.1% | intergenic (+63/‑30) | rrlB/rrfB | 23S ribosomal RNA of rrnB operon/5S ribosomal RNA of rrnB operon |
| ? | NC_000913 | = 4213022 | NA (NA) | intergenic (+76/‑18) | rrlE/rrfE | 23S ribosomal RNA of rrnE operon/5S ribosomal RNA of rrnE operon | |||||
| * | ? | NC_000913 | = 4254000 | NA (NA) | 15 (0.130) | 7/164 | NT | NA | noncoding (100/130 nt) | RIP317 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | RIP317 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site |
| ? | NC_000913 | = 4254030 | NA (NA) | noncoding (130/130 nt) | RIP317 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | RIP317 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | 4266888 = | NA (NA) | 14 (0.120) | 8/164 | NT | NA | noncoding (1/97 nt) | RIP318 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP318 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913 | 4266918 = | NA (NA) | noncoding (31/97 nt) | RIP318 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP318 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | 4325931 = | 182 (1.470) | 33 (0.290) | 8/164 | NT | 21.3% | noncoding (130/583 nt) | REP325 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP325 (repetitive extragenic palindromic) element; contains 12 REP sequences |
| ? | NC_000913 | 4326213 = | 76 (0.670) | noncoding (412/583 nt) | REP325 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP325 (repetitive extragenic palindromic) element; contains 12 REP sequences | |||||
| * | ? | NC_000913 | = 4415961 | NA (NA) | 12 (0.100) | 7/166 | NT | NA | noncoding (4/34 nt) | REP332 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP332 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | = 4415991 | NA (NA) | noncoding (34/34 nt) | REP332 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP332 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||
| * | ? | NC_000913 | 4415962 = | NA (NA) | 11 (0.100) | 9/166 | NT | NA | noncoding (5/34 nt) | REP332 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP332 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | 4415992 = | NA (NA) | intergenic (+92/+25) | aidB/yjfN | DNA alkylation damage repair protein; flavin‑containing DNA binding protein, weak isovaleryl CoA dehydrogenase/DUF1471 family periplasmic protein | |||||
| * | ? | NC_000913 | = 4587878 | NA (NA) | 15 (0.130) | 10/162 | NT | NA | noncoding (7/27 nt) | REP348 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP348 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | = 4587891 | NA (NA) | noncoding (20/27 nt) | REP348 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP348 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||