mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| JC JC | 57,276 | IS2 (+) +5 bp | intergenic (‑167/‑84) | lptD ← / → djlA | lipopolysaccharide assembly protein LptD/co‑chaperone protein DjlA |
| RA | 71,134 | G→A | G250S (GGT→AGT) | araC → | DNA‑binding transcriptional dual regulator AraC |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 370,321 | G→A | G15G (GGG→GGA) | mhpB → | 3‑carboxyethylcatechol 2,3‑dioxygenase |
| RA | 371,474 | G→A | S79N (AGC→AAC) | mhpC → | 2‑hydroxy‑6‑ketonona‑2,4‑dienedioate hydrolase |
| RA | 380,786 | G→A | A19A (GCC→GCT) | yaiO ← | outer membrane protein YaiO |
| RA | 385,467 | G→A | G79D (GGT→GAT) | tauA → | taurine ABC transporter periplasmic binding protein |
| RA | 388,743 | G→A | intergenic (+97/+10) | tauD → / ← hemB | taurine dioxygenase/porphobilinogen synthase |
| RA | 394,482 | G→A | intergenic (+64/‑24) | yaiT → / → iprA | putative autotransporter YaiT/putative DNA‑binding transcriptional regulator IprA |
| RA | 409,730 | C→T | R97H (CGT→CAT) | rdgC ← | nucleoid‑associated protein RdgC |
| RA | 413,605 | C→T | E717K (GAA→AAA) | sbcC ← | ATP‑dependent structure‑specific DNA nuclease ‑ SbcC subunit |
| RA | 415,343 | C→T | A137A (GCG→GCA) | sbcC ← | ATP‑dependent structure‑specific DNA nuclease ‑ SbcC subunit |
| RA | 420,286 | C→T | G232G (GGC→GGT) | brnQ → | branched chain amino acid transporter BrnQ |
| RA | 424,345 | C→T | A192T (GCG→ACG) | acpH ← | acyl carrier protein phosphodiesterase |
| RA | 424,438 | C→T | D161N (GAC→AAC) | acpH ← | acyl carrier protein phosphodiesterase |
| RA | 425,545 | C→T | P179S (CCG→TCG) | queA → | tRNA preQ1(34) S‑adenosylmethionine ribosyltransferase‑isomerase |
| RA | 429,421 | C→T | T592I (ACC→ATC) | secD → | Sec translocon accessory complex subunit SecD |
| RA | 432,667 | C→T | S62N (AGT→AAT) | yajI ← | putative lipoprotein YajI |
| RA | 445,499 | C→T | E390K (GAA→AAA) | yajR ← | putative transport protein YajR |
| RA | 453,002 | C→T | A182T (GCA→ACA) | ampG ← | muropeptide:H(+) symporter |
| RA | 457,918 | C→T | L165L (CTG→TTG) | clpX → | ATP‑dependent Clp protease ATP‑binding subunit ClpX |
| RA | 468,141 | C→T | P244S (CCG→TCG) | cof → | HMP‑PP phosphatase |
| RA | 472,662 | C→T | S22F (TCC→TTC) | glnK → | nitrogen regulatory protein PII‑2 |
| RA | 474,516 | C→T | G216S (GGC→AGC) | tesB ← | acyl‑CoA thioesterase II |
| RA | 488,145 | C→T | A537V (GCT→GTT) | mscK → | potassium dependent, small conductance mechanosensitive channel |
| RA | 491,574 | G→A | A55T (GCG→ACG) | apt → | adenine phosphoribosyltransferase |
| RA | 504,998 | G→A | D29N (GAT→AAT) | ushA → | 5'‑nucleotidase/UDP‑sugar hydrolase |
| RA | 512,793 | G→A | S73N (AGC→AAC) | ybaT → | putative transporter YbaT |
| RA | 523,512 | G→A | K84K (AAG→AAA) | rhsD → | protein RhsD |
| RA | 524,839 | G→A | D527N (GAT→AAT) | rhsD → | protein RhsD |
| RA | 527,882 | G→A | G101D (GGT→GAT) | ybbC → | PF15631 family protein YbbC |
| RA | 528,820 | G→A | intergenic (+871/+825) | ybbC → / ← ylbG | PF15631 family protein YbbC/putative DNA‑binding transcriptional regulator YlbG |
| RA | 551,138 | C→T | P234S (CCG→TCG) | ybcF → | putative carbamate kinase |
| RA | 557,635 | A→T | L36Q (CTG→CAG) | folD ← | bifunctional methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase |
| RA | 562,665 | G→A | Q110Q (CAG→CAA) | sfmH → | putative fimbrial adhesin protein SfmH |
| JC JC | 568,449 | IS2 (–) +5 bp | coding (135‑139/333 nt) | emrE → | multidrug/betaine/choline efflux transporter EmrE |
| RA | 599,761 | G→A | A350T (GCG→ACG) | cusA → | copper/silver export system RND permease |
| RA | 604,759 | G→A | intergenic (‑96/+12) | ybdG ← / ← nfsB | miniconductance mechanosensitive channel YbdG/NAD(P)H‑dependent nitroreductase NfsB |
| RA | 625,977 | G→A | V365M (GTG→ATG) | entC → | isochorismate synthase EntC |
| RA | 631,633 | G→A | W580* (TGG→TGA) | cstA → | pyruvate transporter CstA |
| RA | 637,484 | T→C | L45L (TTA→TTG) | ybdO ← | putative LysR family DNA‑binding transcriptional regulator YbdO |
| RA | 725,370 | G→A | T556I (ACC→ATC) | kdpB ← | K(+) transporting P‑type ATPase subunit KdpB |
| RA | 728,358 | G→A | S125S (AGC→AGT) | kdpA ← | K(+) transporting P‑type ATPase subunit KdpA |
| RA | 729,707 | G→A | G42E (GGG→GAG) | rhsC → | rhs element protein RhsC |
| RA | 738,456 | G→A | R122H (CGT→CAT) | ybfD → | H repeat‑associated putative transposase YbfD |
| RA | 752,785 | C→T | G4E (GGA→GAA) | ybgD ← | putative fimbrial protein YbgD |
| RA | 755,646 | C→T | Y29Y (TAC→TAT) | sdhD → | succinate:quinone oxidoreductase, membrane protein SdhD |
| RA | 787,088 | G→A | L170L (CTG→TTG) | gpmA ← | 2,3‑bisphosphoglycerate‑dependent phosphoglycerate mutase |
| RA | 788,604 | G→A | N78N (AAC→AAT) | galM ← | galactose‑1‑epimerase |
| RA | 796,803 | G→A | D84N (GAT→AAT) | modC → | molybdate ABC transporter ATP binding subunit |
| RA | 799,060 | G→A | D159N (GAT→AAT) | pgl → | 6‑phosphogluconolactonase |
| RA | 811,702 | C→T | R61W (CGG→TGG) | bioC → | malonyl‑acyl carrier protein methyltransferase |
| RA | 811,945 | G→A | V142M (GTG→ATG) | bioC → | malonyl‑acyl carrier protein methyltransferase |
| RA | 813,530 | G→A | S2N (AGT→AAT) | uvrB → | UvrABC excision nuclease subunit B |
| RA | 815,815 | G→A | A278V (GCC→GTC) | ybhK ← | putative transferase YbhK |
| RA | 819,146 | G→A | Q33Q (CAG→CAA) | moaD → | molybdopterin synthase sulfur carrier subunit |
| RA | 822,704 | G→A | Q346* (CAG→TAG) | clsB ← | cardiolipin synthase B |
| RA | 823,045 | G→A | P232L (CCC→CTC) | clsB ← | cardiolipin synthase B |
| RA | 830,066 | G→A | T193I (ACC→ATC) | cecR ← | DNA‑binding transcriptional dual regulator CecR |
| RA | 838,696 | G→A | S171L (TCA→TTA) | ybiX ← | PKHD‑type hydroxylase YbiX |
| RA | 842,503 | G→A | A58T (GCG→ACG) | rlmF → | 23S rRNA m(6)A1618 methyltransferase |
| RA | 843,739 | G→A | T581I (ACT→ATT) | ybiO ← | moderate conductance mechanosensitive channel YbiO |
| RA | 844,802 | G→A | L227F (CTC→TTC) | ybiO ← | moderate conductance mechanosensitive channel YbiO |
| RA | 848,363 | G→A | intergenic (‑359/+45) | glnH ← / ← dps | L‑glutamine ABC transporter periplasmic binding protein/DNA protection during starvation protein |
| RA | 865,779 | G→A | L196L (CTG→TTG) | moeA ← | molybdopterin molybdotransferase |
| RA | 868,647 | G→A | S376S (TCG→TCA) | gsiA → | glutathione ABC transporter ATP binding subunit GsiA |
| RA | 871,029 | G→A | V21V (GTG→GTA) | gsiC → | glutathione ABC transporter membrane subunit GsiC |
| RA | 879,819 | T→C | S360P (TCC→CCC) | yliI → | aldose sugar dehydrogenase YliI |
| RA | 884,185 | G→A | E171E (GAG→GAA) | mdfA → | multidrug efflux pump MdfA/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| RA | 902,912 | G→A | A26V (GCT→GTT) | artI ← | putative ABC transporter periplasmic binding protein ArtI |
| RA | 908,882 | G→A | T138I (ACC→ATC) | ltaE ← | low‑specificity L‑threonine aldolase |
| RA | 914,372 | G→A | V162V (GTC→GTT) | lysO ← | L‑lysine/thialysine exporter |
| RA | 920,786 | G→A | G147D (GGT→GAT) | macB → | ABC‑type tripartite efflux pump ATP binding/membrane subunit |
| RA | 931,091 | T→C | A320A (GCA→GCG) | trxB ← | thioredoxin reductase |
| RA | 944,547 | G→A | S172N (AGT→AAT) | dmsC → | dimethyl sulfoxide reductase subunit C |
| RA | 957,879 | G→A | G76D (GGT→GAT) | serC → | phosphoserine/phosphohydroxythreonine aminotransferase |
| RA | 982,235 | G→A | D397N (GAT→AAT) | ldtD → | L,D‑transpeptidase LdtD |
| RA | 987,152 | G→T | intergenic (‑170/+433) | ompF ← / ← asnS | outer membrane porin F/asparagine‑‑tRNA ligase |
| RA | 991,897 | G→A | E426K (GAA→AAA) | pepN → | aminopeptidase N |
| RA | 994,029 | G→A | L6L (CTG→TTG) | ssuB ← | aliphatic sulfonate ABC transporter ATP binding subunit |
| RA | 995,030 | G→A | A320V (GCC→GTC) | ssuD ← | FMNH2‑dependent alkanesulfonate monooxygenase |
| RA | 1,022,447 | G→A | F479F (TTC→TTT) | yccS ← | putative transporter YccS |
| RA | 1,064,331 | G→A | G99E (GGG→GAG) | yccE → | uncharacterized protein YccE |
| RA | 1,086,957 | G→A | A297V (GCT→GTT) | pgaC ← | poly‑N‑acetyl‑D‑glucosamine synthase subunit PgaC |
| RA | 1,089,330 | G→A | S176S (TCC→TCT) | pgaB ← | poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine N‑deacetylase and beta‑1,6 glycoside hydrolase |
| JC JC | 1,105,376 | IS2 (–) +5 bp | intergenic (+83/‑34) | csgC → / → ymdA | curlin chaperone/uncharacterized protein YmdA |
| 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 | 1,196,277 | C→T | N385N (AAC→AAT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,280 | G→C | A386A (GCG→GCC) | icd → | isocitrate dehydrogenase |
| RA | 1,196,283 | A→G | K387K (AAA→AAG) | icd → | isocitrate dehydrogenase |
| RA | 1,196,292 | C→T | T390T (ACC→ACT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,304 | G→A | E394E (GAG→GAA) | icd → | isocitrate dehydrogenase |
| RA | 1,231,363 | G→A | D60N (GAT→AAT) | umuC → | DNA polymerase V catalytic protein |
| RA | 1,237,855 | C→T | N95N (AAC→AAT) | dadA → | D‑amino acid dehydrogenase |
| RA | 1,260,255 | C→T | V183V (GTG→GTA) | dauA ← | aerobic C4‑dicarboxylate transporter DauA |
| RA | 1,290,881 | C→T | L214F (CTT→TTT) | rssB → | regulator of RpoS |
| MC JC | 1,294,035 | Δ141 bp | [tdk] | [tdk] | |
| MC JC | 1,299,499 | Δ1,199 bp | insH21 | insH21 | |
| JC | 1,303,073 | Δ12 bp | coding (175‑186/921 nt) | oppB → | murein tripeptide ABC transporter/oligopeptide ABC transporter inner membrane subunit OppB |
| RA | 1,337,394 | A→G | S522G (AGC→GGC) | acnA → | aconitate hydratase 1 |
| RA | 1,353,758 | T→A | D254V (GAT→GTT) | sapC ← | putrescine ABC exporter membrane protein SapC |
| RA | 1,494,388 | Δ1 bp | coding (684/924 nt) | ydcI ← | DNA‑binding transcriptional dual regulator YdcI |
| RA | 1,517,508 | G→T | V40V (GTG→GTT) | ortT → | orphan toxin OrtT |
| RA | 1,576,911 | C→A | G237C (GGC→TGC) | yddB ← | putative TonB‑dependent receptor YddB |
| RA | 1,652,331 | T→C | intergenic (+2346/+397) | ydfD → / ← ynfP | lysis protein/protein YnfP |
| RA | 1,667,887 | Δ1 bp | coding (678/1221 nt) | mlc ← | DNA‑binding transcriptional repressor Mlc |
| RA | 1,673,859 | G→A | intergenic (‑150/‑54) | mdtU ← / → tqsA | protein MdtU/autoinducer 2 exporter |
| RA | 1,744,751 | Δ1 bp | coding (1295/1374 nt) | mdtK → | multidrug efflux pump MdtK |
| JC JC | 1,792,772 | IS2 (–) +5 bp | intergenic (‑41/+33) | nlpC ← / ← btuD | NlpC/P60 family lipoprotein NlpC/vitamin B12 ABC transporter ATP binding subunit |
| RA | 1,799,985 | C→T | K5K (AAG→AAA) | rpmI ← | 50S ribosomal subunit protein L35 |
| RA | 1,823,167 | A→G | Y237C (TAT→TGT) | nadE → | NH3‑dependent NAD(+) synthetase |
| RA | 1,872,113 | A→G | I25V (ATT→GTT) | dgcJ → | diguanylate cyclase DgcJ |
| RA | 1,978,243 | G→T | intergenic (‑46/+275) | flhD ← / ← insB5 | DNA‑binding transcriptional dual regulator FlhD/IS1 family protein InsB |
| RA | 2,003,264 | C→T | E115K (GAA→AAA) | fliC ← | flagellar filament structural protein |
| RA | 2,004,762 | C→T | A297A (GCC→GCT) | fliD → | flagellar filament capping protein |
| RA | 2,032,423 | G→A | V219V (GTC→GTT) | yedJ ← | putative HD superfamily phosphohydrolase YedJ |
| RA | 2,064,756 | A→G | L156S (TTG→TCG) | cobS ← | cobalamin 5'‑phosphate synthase |
| RA | 2,090,086 | C→T | intergenic (+40/‑106) | hisL → / → hisG | his operon leader peptide/ATP phosphoribosyltransferase |
| RA | 2,101,553 | G→A | pseudogene (192/349 nt) | wbbL ← | interrupted rhamnosyltransferase WbbL |
| RA | 2,109,428 | G→A | L53L (CTA→TTA) | rfbX ← | polyisoprenol‑linked O16‑antigen repeat unit flippase |
| RA | 2,139,881 | C→T | V578M (GTG→ATG) | asmA ← | putative assembly protein AsmA |
| RA | 2,152,105 | C→T | G123D (GGC→GAC) | pphC ← | protein‑serine/threonine phosphatase PphC |
| RA | 2,166,838 | C→T | L391L (CTG→TTG) | trhP → | tRNA wobble base hydroxylation protein TrhP |
| RA | 2,169,206 | C→T | I165I (ATC→ATT) | yegS → | lipid kinase YegS |
| RA | 2,173,363 | Δ2 bp | intergenic (‑490/+918) | gatD ← / ← gatB | galactitol‑1‑phosphate 5‑dehydrogenase/galactitol‑specific PTS enzyme IIB component |
| RA | 2,183,528 | T→C | I42V (ATT→GTT) | yegX ← | putative glycosyl hydrolase YegX |
| RA | 2,242,121 | A→G | S283P (TCG→CCG) | yeiB ← | DUF418 domain‑containing protein YeiB |
| JC JC | 2,269,876 | IS5 (+) +4 bp | intergenic (+309/‑100) | lpxT → / → mepS | lipid A‑core phosphotransferase/peptidoglycan endopeptidase/peptidoglycan L,D‑carboxypeptidase |
| RA | 2,271,800 | G→A | D359N (GAC→AAC) | pdeN → | putative c‑di‑GMP phosphodiesterase PdeN |
| RA | 2,274,010 | G→A | W549* (TGG→TGA) | yejA → | putative oligopeptide ABC transporter periplasmic binding protein YejA |
| RA | 2,276,671 | G→A | G124G (GGG→GGA) | yejF → | putative oligopeptide ABC transporter ATP binding subunit YejF |
| RA | 2,279,263 | G→A | I166I (ATC→ATT) | bcr ← | multidrug efflux pump Bcr |
| RA | 2,291,052 | G→A | V185I (GTA→ATA) | narP → | DNA‑binding transcriptional dual regulator NarP |
| RA | 2,294,865 | G→A | L14L (CTG→TTG) | ccmF ← | holocytochrome c synthase CcmF component |
| RA | 2,296,419 | G→A | G202G (GGC→GGT) | ccmB ← | cytochrome c maturation protein B |
| RA | 2,296,874 | G→A | P51S (CCG→TCG) | ccmB ← | cytochrome c maturation protein B |
| RA | 2,297,434 | G→A | R71C (CGC→TGC) | ccmA ← | cytochrome c maturation protein A |
| RA | 2,299,927 | G→A | P112S (CCA→TCA) | napG ← | ferredoxin‑type protein NapG |
| RA | 2,303,995 | G→A | A31T (GCG→ACG) | eco → | serine protease inhibitor ecotin |
| RA | 2,319,156 | G→A | P241S (CCG→TCG) | rcsC ← | histidine kinase RcsC |
| JC JC | 2,319,850 | IS2 (+) +5 bp | coding (23‑27/2850 nt) | rcsC ← | histidine kinase RcsC |
| RA | 2,323,041 | G→A | Q392Q (CAG→CAA) | atoC → | DNA‑binding transcriptional activator/ornithine decarboxylase inhibitor AtoC |
| RA | 2,323,243 | G→A | D460N (GAT→AAT) | atoC → | DNA‑binding transcriptional activator/ornithine decarboxylase inhibitor AtoC |
| RA | 2,340,384 | C→T | intergenic (+95/+33) | ubiG → / ← yfaL | bifunctional 3‑demethylubiquinone‑8 3‑O‑methyltransferase and 2‑octaprenyl‑6‑hydroxyphenol methylase/putative autotransporter adhesin YfaL |
| RA | 2,341,475 | C→T | A899T (GCG→ACG) | yfaL ← | putative autotransporter adhesin YfaL |
| RA | 2,355,288 | G→A | G342S (GGT→AGT) | glpB → | anaerobic glycerol‑3‑phosphate dehydrogenase subunit B |
| RA | 2,365,176 | G→A | P149S (CCT→TCT) | ais ← | putative lipopolysaccharide core heptose(II)‑phosphate phosphatase |
| RA | 2,371,341 | G→A | G145E (GGA→GAA) | arnT → | lipid IVA 4‑amino‑4‑deoxy‑L‑arabinosyltransferase |
| RA | 2,373,621 | G→A | intergenic (‑83/+27) | pmrD ← / ← menE | signal transduction protein PmrD/o‑succinylbenzoate‑‑CoA ligase |
| RA | 2,384,531 | C→T | A398T (GCA→ACA) | yfbK ← | IPR002035/DUF3520 domain‑containing protein YfbK |
| RA | 2,390,408 | G→A | F366F (TTC→TTT) | nuoN ← | NADH:quinone oxidoreductase subunit N |
| RA | 2,397,444 | G→A | Q908* (CAA→TAA) | nuoG ← | NADH:quinone oxidoreductase subunit G |
| JC JC | 2,406,780 | IS1 (–) +8 bp | intergenic (‑139/‑774) | lrhA ← / → alaA | DNA‑binding transcriptional dual regulator LrhA/glutamate‑‑pyruvate aminotransferase AlaA |
| RA | 2,421,391 | G→A | E23K (GAA→AAA) | folX → | dihydroneopterin triphosphate 2'‑epimerase |
| RA | 2,427,382 | C→T | G137D (GGT→GAT) | argT ← | lysine/arginine/ornithine ABC transporter periplasmic binding protein |
| RA | 2,427,516 | C→T | S92S (TCG→TCA) | argT ← | lysine/arginine/ornithine ABC transporter periplasmic binding protein |
| RA | 2,443,906 | C→T | Q88Q (CAG→CAA) | yfcL ← | PF08891 family protein YfcL |
| RA | 2,446,459 | C→T | V339I (GTT→ATT) | aroC ← | chorismate synthase |
| RA | 2,452,924 | C→T | intergenic (‑588/+2159) | yfcS ← / ← yfcV | putative fimbrial chaperone YfcS/putative fimbrial protein YfcV |
| RA | 2,454,572 | C→T | intergenic (‑2236/+511) | yfcS ← / ← yfcV | putative fimbrial chaperone YfcS/putative fimbrial protein YfcV |
| RA | 2,457,433 | C→T | G576D (GGC→GAC) | fadJ ← | 3‑hydroxyacyl‑CoA dehydrogenase FadJ |
| MC JC | 2,558,699 | Δ6,790 bp | intZ–[eutA] | intZ, yffL, yffM, yffN, yffO, yffP, yffQ, yffR, yffS, [eutA] | |
| JC JC | 2,666,074 | IS1 (+) +9 bp | coding (640‑648/1281 nt) | csiE → | stationary phase‑inducible protein CsiE |
| RA | 3,102,282 | C→T | V191M (GTG→ATG) | trmB ← | tRNA m(7)G46 methyltransferase |
| RA | 3,215,073 | T→C | Q134R (CAG→CGG) | mug ← | stationary phase mismatch/uracil DNA glycosylase |
| RA | 3,268,970 | A→G | T186A (ACA→GCA) | yhaC → | uncharacterized protein YhaC |
| RA | 3,339,943 | C→G | G41G (GGG→GGC) | mlaF ← | intermembrane phospholipid transport system, ATP binding subunit MlaF |
| RA | 3,446,743 | G→A | L48L (CTG→TTG) | rpsN ← | 30S ribosomal subunit protein S14 |
| RA | 3,486,205 | C→A | T29K (ACG→AAG) | crp → | DNA‑binding transcriptional dual regulator CRP |
| RA | 3,502,726 | G→A | E129E (GAG→GAA) | frlC → | fructoselysine 3‑epimerase |
| RA | 3,549,730 | G→A | T114I (ACC→ATC) | malQ ← | 4‑alpha‑glucanotransferase |
| RA | 3,560,455 | +G | intergenic (+589/+167) | rtcR → / ← glpG | DNA‑binding transcriptional activator RtcR/rhomboid protease GlpG |
| RA | 3,561,880 | G→A | intergenic (‑57/‑133) | glpE ← / → glpD | thiosulfate sulfurtransferase GlpE/aerobic glycerol 3‑phosphate dehydrogenase |
| RA | 3,567,058 | G→A | L326L (CTA→TTA) | glgA ← | glycogen synthase |
| MC JC | 3,682,261 | Δ34 bp | coding (1154‑1187/1287 nt) | dctA ← | C4 dicarboxylate/orotate:H(+) symporter |
| JC JC | 3,737,137 | IS2 (+) +5 bp | coding (37‑41/825 nt) | bax ← | putative glycoside hydrolase Bax |
| RA | 4,115,770 | C→T | A485T (GCA→ACA) | glpK ← | glycerol kinase |
| JC JC | 4,123,923 | IS2 (–) +5 bp | coding (530‑534/1026 nt) | cytR ← | DNA‑binding transcriptional repressor CytR |
| JC JC | 4,135,180 | IS2 (–) +5 bp | coding (1346‑1350/2181 nt) | katG → | catalase/hydroperoxidase HPI |
| RA | 4,146,389 | (T)6→7 | coding (132/879 nt) | pflC → | putative pyruvate formate‑lyase 2 activating enzyme PflC |
| RA | 4,217,823 | G→A | D239N (GAT→AAT) | aceA → | isocitrate lyase |
| RA | 4,223,419 | C→T | Q70Q (CAG→CAA) | iclR ← | DNA‑binding transcriptional repressor IclR |
| RA | 4,264,103 | G→A | I43I (ATC→ATT) | qorA ← | putative quinone oxidoreductase 1 |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| JC JC | 4,536,236 | IS5 (+) +4 bp | intergenic (‑2183/‑358) | topAI ← / → ythB | toxin of the TopAI‑YjhQ toxin‑antitoxin system, TopA inhibitor/protein YthB |
| RA | 4,538,491 | C→T | G92D (GGC→GAC) | nanM ← | N‑acetylneuraminate mutarotase |
| RA | 4,543,024 | C→G | intergenic (+391/‑91) | fimE → / → fimA | regulator for fimA/type 1 fimbriae major subunit |
| RA | 4,559,104 | G→A | S141S (TCC→TCT) | iadA ← | isoaspartyl dipeptidase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 1196313 | 1211492 | 15180 | 8 [7] | [7] 8 | [icd]–mcrA | [icd],C0293,ymfD,ymfE,lit,intE,xisE,ymfH,ymfI,ymfJ,ymfK,ymfT,ymfL,ymfM,ymfN,ymfR,beeE,ymfQ,ycfK,tfaP,tfaE,pinE,mcrA |
| * | * | ÷ | NC_000913 | 1978495 | 1979270 | 776 | 25 [0] | [0] 34 | insB5–insA5 | insB5,insA5 |
| * | * | ÷ | NC_000913 | 3423866–3424232 | 3424449–3424238 | 7–584 | 8 [7] | [7] 9 | [rrlD] | [rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 381260 = | NA (NA) | 33 (0.900) | 31/492 | 0.3 | NA | noncoding (1/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 382183 | NA (NA) | noncoding (924/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 382179 = | NA (NA) | 27 (0.740) | 24/488 | 0.6 | NA | noncoding (920/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 382590 | NA (NA) | noncoding (1331/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 566774 | 36 (0.980) | 15 (0.410) | 12/488 | 1.9 | 28.6% | pseudogene (91/93 nt) | renD | protein RenD |
| ? | NC_000913 | 568036 = | 39 (1.070) | pseudogene (2/213 nt) | renD | protein RenD | |||||
| * | ? | NC_000913 | = 1397238 | NA (NA) | 25 (0.680) | 25/492 | 0.6 | 100% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 1978494 | 0 (0.000) | intergenic (‑297/+24) | flhD/insB5 | DNA‑binding transcriptional dual regulator FlhD/IS1 family protein InsB | |||||
| * | ? | NC_000913 | 1979271 = | 0 (0.000) | 34 (0.920) | 34/492 | 0.2 | 100% | intergenic (‑56/‑482) | insA5/uspC | IS1 family protein InsA/universal stress protein C |
| ? | NC_000913 | = 2102947 | NA (NA) | pseudogene (443/446 nt) | wbbL | interrupted rhamnosyltransferase WbbL | |||||
| * | ? | NC_000913 | = 4542690 | 14 (0.380) | 8 (0.230) | 8/474 | 2.6 | 38.6% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 12 (0.340) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||