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 | 557,635 | A→T | L36Q (CTG→CAG) | folD ← | bifunctional methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase |
| JC JC | 568,449 | IS2 (–) +5 bp | coding (135‑139/333 nt) | emrE → | multidrug/betaine/choline efflux transporter EmrE |
| RA | 631,633 | G→A | W580* (TGG→TGA) | cstA → | pyruvate transporter CstA |
| RA | 828,005 | C→T | G326D (GGC→GAC) | ybhF ← | ABC exporter ATP binding subunit YbhF |
| RA | 833,233 | C→T | P55L (CCC→CTC) | dinG → | ATP‑dependent DNA helicase DinG |
| RA | 834,701 | A→G | G544G (GGA→GGG) | dinG → | ATP‑dependent DNA helicase DinG |
| RA | 844,834 | C→T | S216N (AGT→AAT) | ybiO ← | moderate conductance mechanosensitive channel YbiO |
| RA | 953,383 | C→T | V58I (GTA→ATA) | pflB ← | pyruvate formate‑lyase |
| RA | 961,088 | C→T | intergenic (+60/‑113) | ycaL → / → cmk | periplasmic protease YcaL/cytidylate kinase |
| RA | 973,776 | C→T | D80D (GAC→GAT) | cmoM → | tRNA cmo(5)U34 methyltransferase |
| RA | 987,152 | G→T | intergenic (‑170/+433) | ompF ← / ← asnS | outer membrane porin F/asparagine‑‑tRNA ligase |
| RA | 1,051,393 | C→T | intergenic (‑218/‑68) | cspH ← / → cspG | CspA family protein CspH/cold shock protein CspG |
| RA | 1,075,684 | C→T | A1067T (GCC→ACC) | putA ← | fused DNA‑binding transcriptional repressor/proline dehydrogenase/1‑pyrroline‑5‑carboxylate dehydrogenase PutA |
| JC JC | 1,105,376 | IS2 (–) +5 bp | intergenic (+83/‑34) | csgC → / → ymdA | curlin chaperone/uncharacterized protein YmdA |
| RA | 1,164,173 | G→A | G27R (GGA→AGA) | nagZ → | beta‑N‑acetylglucosaminidase |
| RA | 1,184,738 | G→A | P286L (CCG→CTG) | potA ← | spermidine preferential ABC transporter ATP binding subunit |
| RA | 1,188,675 | G→A | P368S (CCA→TCA) | phoQ ← | sensor histidine kinase PhoQ |
| RA | 1,190,060 | G→A | P130S (CCC→TCC) | phoP ← | DNA‑binding transcriptional dual regulator PhoP |
| 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 | 1,196,316 | T→A | D398E (GAT→GAA) | icd → | isocitrate dehydrogenase |
| RA | 1,196,325 | A→G | K401K (AAA→AAG) | icd → | isocitrate dehydrogenase |
| RA | 1,214,349 | G→A | A376V (GCA→GTA) | bluF ← | blue light‑ and temperature‑regulated antirepressor BluF |
| RA | 1,222,374 | G→A | C87C (TGC→TGT) | ymgD ← | PF16456 family protein YmgD |
| RA | 1,224,022 | G→A | intergenic (+573/+257) | ymgJ → / ← minE | uncharacterized protein YmgJ/Z‑ring positioning protein MinE |
| RA | 1,237,210 | G→A | T11I (ACC→ATC) | ycgB ← | PF04293 family protein YcgB |
| RA | 1,290,881 | C→T | L214F (CTT→TTT) | rssB → | regulator of RpoS |
| MC JC | 1,294,035 | Δ141 bp | [tdk] | [tdk] | |
| RA | 1,297,640 | C→T | G161D (GGT→GAT) | adhE ← | fused acetaldehyde‑CoA dehydrogenase and iron‑dependent alcohol dehydrogenasealdehyde/alcohol dehydrogenase AdhE |
| MC 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 | 1,429,160 | C→G | L38V (CTG→GTG) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,164 | C→G | A39G (GCC→GGC) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,171 | A→G | E41E (GAA→GAG) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,204 | C→T | D52D (GAC→GAT) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,207 | T→G | V53V (GTT→GTG) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,225 | C→T | S59S (AGC→AGT) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,228 | T→C | V60V (GTT→GTC) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,231 | T→C | I61I (ATT→ATC) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,235 | 2 bp→CA | coding (187‑188/3363 nt) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,240 | G→T | V64V (GTG→GTT) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,243 | A→C | E65D (GAA→GAC) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,246 | A→T | G66G (GGA→GGT) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,249 | C→T | F67F (TTC→TTT) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,252 | G→A | P68P (CCG→CCA) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,255 | G→A | P69P (CCG→CCA) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,258 | A→G | S70S (TCA→TCG) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,261 | T→C | H71H (CAT→CAC) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,273 | T→C | I75I (ATT→ATC) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,291 | T→A | S81S (TCT→TCA) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,297 | C→G | P83P (CCC→CCG) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,300 | T→G | G84G (GGT→GGG) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,319 | G→T | G91C (GGT→TGT) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,345 | T→G | R99R (CGT→CGG) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,353 | 2 bp→TG | coding (305‑306/3363 nt) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,360 | C→T | R104R (CGC→CGT) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,364 | T→C | F106L (TTT→CTT) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,404 | C→T | A119V (GCG→GTG) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,416 | 2 bp→GT | coding (368‑369/3363 nt) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,425 | C→A | A126D (GCC→GAC) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,435 | G→A | K129K (AAG→AAA) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,442 | A→G | S132G (AGT→GGC) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,444 | T→C | S132G (AGT→GGC) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,453 | 2 bp→TG | coding (405‑406/3363 nt) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,463 | 2 bp→GC | coding (415‑416/3363 nt) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,466 | G→C | E140Q (GAG→CAG) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,470 | 2 bp→TC | coding (422‑423/3363 nt) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,474 | 2 bp→GG | coding (426‑427/3363 nt) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,479 | A→T | H144L (CAT→CTT) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,482 | C→T | A145V (GCG→GTG) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,484 | G→A | A146T (GCT→ACT) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,492 | 2 bp→AA | coding (444‑445/3363 nt) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,495 | G→T | A149A (GCG→GCT) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,510 | A→C | A154A (GCA→GCC) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,522 | A→C | S158S (TCA→TCC) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,429,534 | C→T | A162A (GCC→GCT) | stfR → | putative prophage side tail fiber protein StfR |
| RA | 1,464,283 | G→A | E249K (GAG→AAG) | paaX → | DNA‑binding transcriptional repressor PaaX |
| 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 | 1,574,501 | G→A | D234D (GAC→GAT) | pqqL ← | periplasmic metalloprotease |
| RA | 1,618,227 | C→T | intergenic (+9/+16) | ydeA → / ← marC | L‑arabinose exporter/inner membrane protein MarC |
| 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 | 1,744,751 | 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 | 1,816,913 | C→T | G75R (GGG→AGG) | chbG ← | chitooligosaccharide monodeacetylase ChbG |
| RA | 1,823,728 | G→A | A72T (GCC→ACC) | cho → | excinuclease Cho |
| RA | 1,831,435 | G→A | S183F (TCT→TTT) | astC ← | succinylornithine transaminase |
| RA | 1,835,860 | G→A | A116T (GCG→ACG) | ynjA → | AhpD‑like domain‑containing protein YnjA |
| RA | 1,845,475 | G→A | L496L (CTG→TTG) | topB ← | DNA topoisomerase III |
| RA | 1,845,912 | G→A | A350V (GCC→GTC) | topB ← | DNA topoisomerase III |
| RA | 1,854,305 | C→T | D184N (GAC→AAC) | ydjF ← | putative DNA‑binding transcriptional regulator YdjF |
| RA | 1,854,927 | C→T | intergenic (‑73/+64) | ydjF ← / ← ydjG | putative DNA‑binding transcriptional regulator YdjF/NADH‑dependent methylglyoxal reductase |
| RA | 1,860,532 | G→A | L267L (CTC→CTT) | ydjL ← | putative zinc‑binding dehydrogenase YdjL |
| RA | 1,864,475 | G→A | R209H (CGC→CAC) | yeaD → | putative aldose 1‑epimerase YeaD |
| RA | 1,868,152 | G→A | G415G (GGG→GGA) | yeaG → | protein kinase YeaG |
| RA | 1,898,386 | G→A | intergenic (+90/‑41) | sdaA → / → pdeD | L‑serine deaminase I/putative c‑di‑GMP phosphodiesterase PdeD |
| RA | 1,901,679 | G→A | S18F (TCT→TTT) | yoaL ← | protein YoaL |
| RA | 1,913,979 | C→T | D280N (GAC→AAC) | prc ← | tail‑specific protease |
| RA | 1,919,587 | G→A | G693D (GGT→GAT) | letB → | lipophilic envelope spanning tunnel |
| RA | 1,921,166 | C→T | P315L (CCC→CTC) | rsmF → | 16S rRNA m(5)C1407 methyltransferase |
| RA | 1,923,685 | C→T | A8T (GCG→ACG) | yebY ← | DUF2511 domain‑containing protein YebY |
| RA | 1,924,639 | C→T | D111N (GAC→AAC) | yobA ← | copper‑binding protein |
| RA | 1,931,811 | C→T | P311S (CCG→TCG) | purT → | phosphoribosylglycinamide formyltransferase 2 |
| RA | 1,937,945 | C→T | N99N (AAC→AAT) | pykA → | pyruvate kinase 2 |
| 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 | 2,008,426 | C→T | G50G (GGC→GGT) | yedE → | putative selenium transporter YedE |
| RA | 2,010,262 | G→A | V148I (GTC→ATC) | yedK → | genome maintenance protein |
| RA | 2,032,423 | G→A | V219V (GTC→GTT) | yedJ ← | putative HD superfamily phosphohydrolase YedJ |
| RA | 2,038,532 | G→A | L98L (CTG→TTG) | hprR ← | DNA‑binding transcriptional dual regulator HprR |
| RA | 2,128,907 | G→A | V248V (GTC→GTT) | wcaE ← | GDP‑Fuc:2/3‑O‑Ac‑alpha‑L‑Fuc‑(1‑>3)‑alpha‑D‑Glc‑ PP‑Und alpha‑(1,4)‑fucosyltransferase |
| RA | 2,173,363 | Δ2 bp | intergenic (‑490/+918) | gatD ← / ← gatB | galactitol‑1‑phosphate 5‑dehydrogenase/galactitol‑specific PTS enzyme IIB component |
| 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 |
| JC JC | 2,319,850 | IS2 (+) +5 bp | coding (23‑27/2850 nt) | rcsC ← | histidine kinase RcsC |
| 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 | 2,422,545 | G→A | G280S (GGT→AGT) | yfcH → | epimerase family protein YfcH |
| RA | 2,520,477 | G→A | L66L (CTG→TTG) | gltX ← | glutamate‑‑tRNA ligase |
| MC JC | 2,558,699 | Δ6,790 bp | intZ–[eutA] | intZ, yffL, yffM, yffN, yffO, yffP, yffQ, yffR, yffS, [eutA] | |
| RA | 2,593,230 | C→T | V181M (GTG→ATG) | ypfH ← | esterase YpfH |
| RA | 2,603,685 | C→T | P623L (CCC→CTC) | hyfB → | hydrogenase 4 component B |
| RA | 2,620,332 | C→T | A181T (GCA→ACA) | upp ← | uracil phosphoribosyltransferase |
| RA | 2,621,166 | C→T | intergenic (‑294/‑31) | upp ← / → purM | uracil phosphoribosyltransferase/phosphoribosylformylglycinamide cyclo‑ligase |
| RA | 2,629,883 | C→T | A31V (GCC→GTC) | yfgH → | lipoprotein YfgH |
| RA | 2,633,906 | C→T | A55A (GCG→GCA) | guaB ← | inosine 5'‑monophosphate dehydrogenase |
| RA | 2,635,195 | C→T | L322L (CTG→TTG) | xseA → | exodeoxyribonuclease VII subunit XseA |
| RA | 2,659,219 | C→T | Q83Q (CAG→CAA) | hscB ← | [Fe‑S] cluster biosynthesis co‑chaperone HscB |
| JC JC | 2,666,074 | IS1 (+) +9 bp | coding (640‑648/1281 nt) | csiE → | stationary phase‑inducible protein CsiE |
| RA | 2,718,323 | C→T | W69* (TGG→TAG) | yfiF ← | putative methyltransferase YfiF |
| RA | 2,725,642 | C→T | W35* (TGG→TGA) | kgtP ← | alpha‑ketoglutarate:H(+) symporter |
| RA | 2,726,122 | C→T | noncoding (67/120 nt) | rrfG ← | 5S ribosomal RNA |
| RA | 2,746,691 | C→T | D369N (GAC→AAC) | ffh ← | signal recognition particle protein component |
| RA | 2,748,463 | C→T | P168S (CCA→TCA) | ypjD → | cytochrome c assembly family protein |
| RA | 2,750,150 | C→T | A187T (GCG→ACG) | grpE ← | nucleotide exchange factor GrpE |
| RA | 2,752,143 | C→T | L117L (CTG→TTG) | recN → | DNA repair protein RecN |
| RA | 3,268,970 | A→G | T186A (ACA→GCA) | yhaC → | uncharacterized protein YhaC |
| RA | 3,486,205 | C→A | T29K (ACG→AAG) | crp → | DNA‑binding transcriptional dual regulator CRP |
| RA | 3,560,455 | +G | intergenic (+589/+167) | rtcR → / ← glpG | DNA‑binding transcriptional activator RtcR/rhomboid protease GlpG |
| RA | 3,577,691 | C→T | intergenic (‑99/+40) | gntK ← / ← gntR | D‑gluconate kinase, thermostable/DNA‑binding transcriptional repressor GntR |
| 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 | 3,776,287 | G→A | L32F (CTT→TTT) | yibT ← | protein YibT |
| RA | 3,791,594 | G→A | L320L (CTG→TTG) | kbl ← | 2‑amino‑3‑ketobutyrate CoA ligase |
| RA | 3,852,978 | G→A | S4F (TCC→TTC) | ivbL ← | ilvBN operon leader peptide |
| RA | 3,906,152 | G→A | T139I (ACC→ATC) | bglG ← | transcriptional antiterminator BglG |
| RA | 3,913,479 | G→A | L64L (CTG→TTG) | glmS ← | L‑glutamine‑‑D‑fructose‑6‑phosphate aminotransferase |
| RA | 3,917,605 | G→A | R221C (CGT→TGT) | atpG ← | ATP synthase F1 complex subunit gamma |
| RA | 3,922,570 | G→A | intergenic (‑130/+487) | atpI ← / ← rsmG | ATP synthase accessory factor AtpI/16S rRNA m(7)G527 methyltransferase |
| RA | 3,928,008 | G→A | G285D (GGT→GAT) | asnA → | asparagine synthetase A |
| RA | 3,959,071 | G→A | G368S (GGC→AGC) | ilvC → | ketol‑acid reductoisomerase (NADP(+)) |
| RA | 3,959,203 | G→A | V412I (GTT→ATT) | ilvC → | ketol‑acid reductoisomerase (NADP(+)) |
| RA | 3,966,927 | G→A | G171S (GGT→AGT) | rho → | transcription termination factor Rho |
| RA | 3,975,757 | G→A | E204E (GAG→GAA) | wecE → | dTDP‑4‑dehydro‑6‑deoxy‑D‑glucose transaminase |
| RA | 3,985,381 | G→A | G209G (GGC→GGT) | aslA ← | putative sulfatase AslA |
| RA | 3,985,943 | G→A | A22V (GCC→GTC) | aslA ← | putative sulfatase AslA |
| RA | 3,994,609 | C→T | P30S (CCT→TCT) | yifL → | putative lipoprotein YifL |
| RA | 4,028,896 | G→A | H692H (CAC→CAT) | fadB ← | multifunctional enoyl‑CoA hydratase, 3‑hydroxyacyl‑CoA epimerase, Delta(3)‑cis‑ Delta(2)‑trans‑enoyl‑CoA isomerase, L‑3‑hydroxyacyl‑CoA dehydrogenase |
| RA | 4,056,166 | G→A | Y58Y (TAC→TAT) | glnL ← | protein histidine kinase NtrB |
| RA | 4,057,198 | G→A | G279G (GGC→GGT) | glnA ← | glutamine synthetase |
| RA | 4,060,213 | G→A | A603T (GCA→ACA) | bipA → | 50S ribosomal subunit assembly factor BipA |
| RA | 4,068,390 | G→A | T296I (ACC→ATC) | yihQ ← | sulfoquinovosidase |
| RA | 4,091,974 | G→A | H131H (CAC→CAT) | frvB ← | putative PTS enzyme IIBC component FrvB |
| RA | 4,092,637 | G→A | P63S (CCG→TCG) | frvA ← | putative PTS enzyme IIA component FrvA |
| RA | 4,095,578 | G→A | C135C (TGC→TGT) | rhaA ← | L‑rhamnose isomerase |
| RA | 4,101,843 | G→A | A52T (GCG→ACG) | kdgT → | 2‑dehydro‑3‑deoxy‑D‑gluconate:H(+) symporter |
| RA | 4,114,396 | G→A | A26V (GCC→GTC) | fpr ← | flavodoxin/ferredoxin‑NADP(+) reductase |
| 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 | 4,296,381 | +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 | 4,542,683 | Δ1 bp | intergenic (+50/‑432) | fimE → / → fimA | regulator for fimA/type 1 fimbriae major subunit |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 1196328 | 1211436 | 15109 | 22 [21] | [21] 22 | [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 | 92 [0] | [0] 120 | insB5–insA5 | insB5,insA5 |
| * | * | ÷ | NC_000913 | 3423848–3424229 | 3424431–3424238 | 10–584 | 22 [21] | [21] 22 | [rrlD] | [rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 381260 = | NA (NA) | 40 (0.410) | 31/598 | 1.7 | 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) | 24 (0.240) | 21/594 | 2.7 | NA | noncoding (920/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 382590 | NA (NA) | noncoding (1331/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 566774 | 92 (0.930) | 39 (0.400) | 23/594 | 2.4 | 29.6% | pseudogene (91/93 nt) | renD | protein RenD |
| ? | NC_000913 | 568036 = | 94 (0.960) | pseudogene (2/213 nt) | renD | protein RenD | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 122 (1.250) | 70/590 | 0.2 | 100% | intergenic (+253/‑69) | ychE/insH21 | MarC family putative inner membrane protein YchE/IS5 family transposase and trans‑activator |
| ? | NC_000913 | 1300698 = | 0 (0.000) | intergenic (+151/‑484) | insH21/oppA | IS5 family transposase and trans‑activator/oligopeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | = 1397238 | NA (NA) | 92 (0.930) | 64/598 | 0.3 | 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 | = 1411924 | 9 (0.090) | 77 (0.850) | 59/546 | 0.3 | 86.4% | coding (25/936 nt) | ttcA | tRNA cytosine(32) 2‑sulfurtransferase TtcA |
| ? | NC_000913 | 1434985 = | 16 (0.180) | intergenic (‑579/+200) | ynaM/uspF | protein YnaM/universal stress protein F | |||||
| * | ? | NC_000913 | 1979271 = | 0 (0.000) | 121 (1.230) | 79/598 | 0.1 | 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 | |||||