mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NZ_CP022686 | 119,184 | T→G | 12.1% | F47V (TTT→GTT) | marB → | multiple antibiotic resistance protein MarB |
| RA | NZ_CP022686 | 235,846 | A→C | 6.8% | N287T (AAC→ACC) | pykF → | pyruvate kinase PykF |
| RA | NZ_CP022686 | 340,516 | A→C | 9.1% | F31V (TTT→GTT) | ydjK ← | MFS transporter |
| RA | NZ_CP022686 | 349,100 | A→C | 14.3% | T605P (ACG→CCG) | yeaG → | protein kinase YeaG |
| RA | NZ_CP022686 | 350,056 | A→C | 14.0% | K241T (AAA→ACA) | yeaH → | YeaH/YhbH family protein |
| RA | NZ_CP022686 | 360,227 | T→G | 13.4% | T35P (ACG→CCG) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| RA | NZ_CP022686 | 360,236 | C→A | 17.2% | D32Y (GAT→TAT) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| RA | NZ_CP022686 | 360,269 | T→G | 9.7% | T21P (ACT→CCT) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| RA | NZ_CP022686 | 436,591 | A→C | 7.5% | intergenic (‑19/+38) | CIW80_RS02305 ← / ← CIW80_RS02310 | phage minor tail protein L/phage tail protein |
| RA | NZ_CP022686 | 457,894 | Δ1 bp | 100% | pseudogene (288/997 nt) | CIW80_RS02445 ← | DUF968 domain‑containing protein |
| RA | NZ_CP022686 | 496,086 | A→C | 13.8% | L399V (TTA→GTA) | otsA ← | alpha,alpha‑trehalose‑phosphate synthase |
| RA | NZ_CP022686 | 556,942 | G→T | 18.1% | intergenic (+126/‑722) | zinT → / → CIW80_RS03080 | metal‑binding protein ZinT/site‑specific integrase |
| RA | NZ_CP022686 | 556,948 | A→T | 12.5% | intergenic (+132/‑716) | zinT → / → CIW80_RS03080 | metal‑binding protein ZinT/site‑specific integrase |
| RA | NZ_CP022686 | 556,957 | C→A | 12.8% | intergenic (+141/‑707) | zinT → / → CIW80_RS03080 | metal‑binding protein ZinT/site‑specific integrase |
| RA | NZ_CP022686 | 560,880 | C→T | 100% | intergenic (+62/+53) | CIW80_RS03085 → / ← pilV | hypothetical protein/shufflon system plasmid conjugative transfer pilus tip adhesin PilV |
| RA | NZ_CP022686 | 601,295 | T→G | 21.0% | V1607G (GTC→GGC) | irp1 → | yersiniabactin polyketide synthase HMWP1 |
| RA | NZ_CP022686 | 601,302 | T→G | 21.7% | R1609R (CGT→CGG) | irp1 → | yersiniabactin polyketide synthase HMWP1 |
| MC JC | NZ_CP022686 | 628,478 | Δ1,286 bp | 100% | [clbP] | [clbP] | |
| RA | NZ_CP022686 | 651,844 | G→C | 8.2% | Q240E (CAA→GAA) | clbJ ← | colibactin non‑ribosomal peptide synthetase ClbJ |
| RA | NZ_CP022686 | 693,021 | A→C | 9.6% | T121P (ACG→CCG) | CIW80_RS03550 → | YaiO family outer membrane beta‑barrel protein |
| RA | NZ_CP022686 | 756,115 | A→G | 100% | G181G (GGT→GGC) | galE ← | UDP‑glucose 4‑epimerase GalE |
| RA | NZ_CP022686 | 794,460 | C→T | 100% | A568V (GCG→GTG) | dgcE → | diguanylate cyclase |
| RA | NZ_CP022686 | 829,441 | C→A | 20.1% | intergenic (‑30/+197) | gatY ← / ← fbaB | tagatose‑bisphosphate aldolase subunit GatY/class I fructose‑bisphosphate aldolase |
| RA | NZ_CP022686 | 829,452 | G→T | 14.9% | intergenic (‑41/+186) | gatY ← / ← fbaB | tagatose‑bisphosphate aldolase subunit GatY/class I fructose‑bisphosphate aldolase |
| RA | NZ_CP022686 | 837,555 | T→G | 14.0% | intergenic (‑128/+95) | thiM ← / ← rcnR | hydroxyethylthiazole kinase/Ni(II)/Co(II)‑binding transcriptional repressor RcnR |
| RA | NZ_CP022686 | 837,573 | C→A | 24.2% | intergenic (‑146/+77) | thiM ← / ← rcnR | hydroxyethylthiazole kinase/Ni(II)/Co(II)‑binding transcriptional repressor RcnR |
| RA | NZ_CP022686 | 859,943 | T→G | 11.9% | L602V (TTA→GTA) | yehM → | DUF5682 family protein |
| RA | NZ_CP022686 | 859,954 | A→C | 10.3% | R605R (CGA→CGC) | yehM → | DUF5682 family protein |
| RA | NZ_CP022686 | 881,742 | A→C | 17.5% | intergenic (+257/+130) | yohP → / ← dusC | protein YohP/tRNA dihydrouridine(16) synthase DusC |
| RA | NZ_CP022686 | 917,427:1 | +TT | 100% | intergenic (+130/‑91) | yeiP → / → yeiQ | elongation factor P‑like protein YeiP/mannitol dehydrogenase family protein |
| RA | NZ_CP022686 | 937,864 | G→A | 100% | G29R (GGA→AGA) | CIW80_RS04770 → | integrase domain‑containing protein |
| RA | NZ_CP022686 | 948,023 | G→T | 10.6% | intergenic (+92/‑165) | CIW80_RS04855 → / → CIW80_RS04860 | terminase small subunit/hypothetical protein |
| RA | NZ_CP022686 | 948,098 | G→T | 13.4% | intergenic (+167/‑90) | CIW80_RS04855 → / → CIW80_RS04860 | terminase small subunit/hypothetical protein |
| RA | NZ_CP022686 | 957,112 | T→G | 10.4% | T89P (ACC→CCC) | ccmA ← | cytochrome c biogenesis heme‑transporting ATPase CcmA |
| RA | NZ_CP022686 | 1,005,085 | C→A | 13.8% | T380T (ACC→ACA) | nrdA → | ribonucleoside‑diphosphate reductase subunit alpha |
| RA | NZ_CP022686 | 1,022,752 | T→G | 7.5% | T44P (ACG→CCG) | yfaZ ← | YfaZ family outer membrane protein |
| RA | NZ_CP022686 | 1,034,493 | T→G | 9.5% | T26P (ACC→CCC) | menC ← | o‑succinylbenzoate synthase |
| RA | NZ_CP022686 | 1,151,773 | T→G | 5.7% | N379T (AAC→ACC) | alaC ← | alanine transaminase |
| RA | NZ_CP022686 | 1,174,272 | A→C | 13.9% | intergenic (+1/‑43) | CIW80_RS05855 → / → CIW80_RS05860 | tRNA‑Val/tRNA‑Val |
| RA | NZ_CP022686 | 1,209,908 | T→G | 24.1% | D396A (GAC→GCC) | eutH ← | ethanolamine utilization protein EutH |
| RA | NZ_CP022686 | 1,237,918 | C→A | 9.6% | C303F (TGC→TTC) | tmcA ← | tRNA cytosine(34) acetyltransferase TmcA |
| RA | NZ_CP022686 | 1,280,117 | T→G | 8.8% | N8H (AAC→CAC) | yfgM ← | ancillary SecYEG translocon subunit YfgM |
| RA | NZ_CP022686 | 1,360,742 | C→A | 6.6% | intergenic (‑77/+247) | kgtP ← / ← rrf | alpha‑ketoglutarate permease/5S ribosomal RNA |
| RA | NZ_CP022686 | 1,371,093 | A→C | 12.2% | Y36S (TAC→TCC) | bamD → | outer membrane protein assembly factor BamD |
| RA | NZ_CP022686 | 1,396,464 | T→G | 8.9% | intergenic (+70/‑167) | gabT → / → gabP | 4‑aminobutyrate‑‑2‑oxoglutarate transaminase/GABA permease |
| RA | NZ_CP022686 | 1,424,362 | A→T | 9.6% | intergenic (‑58/+5) | CIW80_RS07085 ← / ← CIW80_RS07090 | tRNA‑Arg/tRNA‑Arg |
| RA | NZ_CP022686 | 1,447,198 | T→A | 9.6% | V35V (GTA→GTT) | hycI ← | hydrogenase maturation peptidase HycI |
| RA | NZ_CP022686 | 1,459,108 | T→G | 7.7% | V171G (GTC→GGC) | flhA → | formate hydrogenlyase transcriptional activator FlhA |
| RA | NZ_CP022686 | 1,479,619 | T→A | 15.7% | intergenic (‑28/+165) | ftsB ← / ← ygbE | cell division protein FtsB/DUF3561 family protein |
| RA | NZ_CP022686 | 1,504,257 | A→T | 11.6% | S232C (AGT→TGT) | CIW80_RS07520 → | YgcG family protein |
| RA | NZ_CP022686 | 1,504,277 | C→A | 8.3% | I238I (ATC→ATA) | CIW80_RS07520 → | YgcG family protein |
| RA | NZ_CP022686 | 1,504,289 | T→G | 11.4% | R242R (CGT→CGG) | CIW80_RS07520 → | YgcG family protein |
| RA | NZ_CP022686 | 1,558,370 | A→C | 6.7% | D456A (GAC→GCC) | vgrG → | type VI secretion system Vgr family protein |
| RA | NZ_CP022686 | 1,619,248 | G→T | 7.0% | intergenic (+37/+280) | yqeG → / ← CIW80_RS07990 | amino acid permease/tRNA‑Gly |
| RA | NZ_CP022686 | 1,633,846 | T→G | 30.4% | N253T (AAC→ACC) | yqeB ← | selenium‑dependent molybdenum cofactor biosynthesis protein YqeB |
| RA | NZ_CP022686 | 1,640,925 | A→C | 10.0% | R7S (AGA→AGC) | ygfM → | molybdopterin‑dependent oxidoreductase FAD‑binding subunit |
| RA | NZ_CP022686 | 1,674,224 | T→G | 14.7% | K188N (AAA→AAC) | ygfB ← | UPF0149 family protein YgfB |
| RA | NZ_CP022686 | 1,674,244 | T→G | 8.5% | T182P (ACC→CCC) | ygfB ← | UPF0149 family protein YgfB |
| RA | NZ_CP022686 | 1,674,248 | T→G | 12.6% | Q180H (CAA→CAC) | ygfB ← | UPF0149 family protein YgfB |
| RA | NZ_CP022686 | 1,697,914 | T→G | 10.6% | intergenic (+23/+196) | CIW80_RS08360 → / ← tkt | prohibitin family protein/transketolase |
| RA | NZ_CP022686 | 1,706,032 | G→T | 9.6% | intergenic (‑642/‑13) | yqgB ← / → metK | acid stress response protein YqgB/methionine adenosyltransferase |
| RA | NZ_CP022686 | 1,716,167 | A→C | 11.7% | N49T (AAC→ACC) | rdgB → | XTP/dITP diphosphatase |
| RA | NZ_CP022686 | 1,925,332 | A→C | 9.3% | N151T (AAC→ACC) | ygiB → | DUF1190 family protein |
| RA | NZ_CP022686 | 1,954,923 | T→G | 25.7% | T92P (ACG→CCG) | ttdR ← | DNA‑binding transcriptional activator TtdR |
| RA | NZ_CP022686 | 1,990,409 | A→C | 6.1% | F423V (TTT→GTT) | uxaA ← | altronate dehydratase |
| RA | NZ_CP022686 | 2,016,160 | T→G | 7.3% | noncoding (114/377 nt) | rnpB ← | RNase P RNA component class A |
| RA | NZ_CP022686 | 2,016,170 | A→C | 8.9% | noncoding (104/377 nt) | rnpB ← | RNase P RNA component class A |
| RA | NZ_CP022686 | 2,016,225 | T→G | 8.5% | noncoding (49/377 nt) | rnpB ← | RNase P RNA component class A |
| RA | NZ_CP022686 | 2,027,390 | A→C | 7.2% | K80N (AAA→AAC) | agaE → | PTS N‑acetylgalactosamine transporter subunit IID |
| RA | NZ_CP022686 | 2,047,987 | A→C | 7.4% | R623R (CGT→CGG) | deaD ← | ATP‑dependent RNA helicase DeaD |
| RA | NZ_CP022686 | 2,049,094 | G→T | 7.3% | T254T (ACC→ACA) | deaD ← | ATP‑dependent RNA helicase DeaD |
| RA | NZ_CP022686 | 2,056,168 | A→C | 10.2% | G614G (GGT→GGG) | infB ← | translation initiation factor IF‑2 |
| RA | NZ_CP022686 | 2,056,193 | A→C | 6.5% | V606G (GTT→GGT) | infB ← | translation initiation factor IF‑2 |
| RA | NZ_CP022686 | 2,061,805 | G→C | 6.6% | G392R (GGC→CGC) | argG → | argininosuccinate synthase |
| RA | NZ_CP022686 | 2,110,465 | T→G | 10.6% | T10P (ACC→CCC) | rplM ← | 50S ribosomal protein L13 |
| RA | NZ_CP022686 | 2,123,241 | A→C | 12.0% | F208V (TTT→GTT) | tldD ← | metalloprotease TldD |
| RA | NZ_CP022686 | 2,148,115 | T→G | 13.0% | L126R (CTG→CGG) | panF → | sodium/pantothenate symporter |
| RA | NZ_CP022686 | 2,148,136 | T→G | 11.9% | V133G (GTT→GGT) | panF → | sodium/pantothenate symporter |
| RA | NZ_CP022686 | 2,148,141 | T→G | 11.3% | F135V (TTC→GTC) | panF → | sodium/pantothenate symporter |
| RA | NZ_CP022686 | 2,185,075 | A→C | 7.8% | V46G (GTT→GGT) | rpsE ← | 30S ribosomal protein S5 |
| RA | NZ_CP022686 | 2,207,100 | C→A | 13.1% | intergenic (‑124/+45) | bfd ← / ← chiA | bacterioferritin‑associated ferredoxin/bifunctional chitinase/lysozyme |
| RA | NZ_CP022686 | 2,214,419 | T→C | 100% | K43R (AAA→AGA) | rpsL ← | 30S ribosomal protein S12 |
| RA | NZ_CP022686 | 2,215,215 | A→C | 6.9% | F38V (TTC→GTC) | tusC ← | sulfurtransferase complex subunit TusC |
| RA | NZ_CP022686 | 2,226,139 | A→C | 6.7% | D9A (GAC→GCC) | crp → | cAMP‑activated global transcriptional regulator CRP |
| RA | NZ_CP022686 | 2,320,775 | C→T | 100% | G274S (GGC→AGC) | CIW80_RS11675 ← | DNA‑processing protein DprA |
| RA | NZ_CP022686 | 2,353,098 | T→G | 5.9% | F83V (TTT→GTT) | yhhN → | lysoplasmalogenase |
| RA | NZ_CP022686 | 2,357,324 | A→C | 18.6% | N37T (AAC→ACC) | dcrB → | phage sensitivity protein DcrB |
| RA | NZ_CP022686 | 2,393,013 | T→G | 5.6% | intergenic (+151/‑2) | slp → / → dctR | outer membrane lipoprotein Slp/LuxR C‑terminal‑related transcriptional regulator |
| RA | NZ_CP022686 | 2,394,291 | C→G | 19.9% | E114Q (GAA→CAA) | chuS ← | hematinate‑forming heme oxygenase ChuS |
| RA | NZ_CP022686 | 2,408,861 | Δ1 bp | 100% | pseudogene (1097/3115 nt) | mdtF → | multidrug efflux pump RND permease MdtF |
| RA | NZ_CP022686 | 2,516,577 | A→G | 8.9% | T663A (ACA→GCA) | upaG → | trimeric autotransporter adhesin UpaG |
| RA | NZ_CP022686 | 2,546,386 | C→A | 9.7% | A98S (GCC→TCC) | waaG ← | glycosyltransferase family 4 protein |
| JC | NZ_CP022686 | 2,590,563 | +TTGG | 100% | coding (109/153 nt) | CIW80_RS26455 → | hypothetical protein |
| RA | NZ_CP022686 | 2,736,586 | A→C | 11.8% | Y183S (TAC→TCC) | rffA → | dTDP‑4‑amino‑4,6‑dideoxygalactose transaminase |
| RA | NZ_CP022686 | 2,793,316 | C→A | 8.1% | D396Y (GAT→TAT) | fdrA ← | acyl‑CoA synthetase FdrA |
| RA | NZ_CP022686 | 2,808,127 | T→G | 10.4% | V441G (GTC→GGC) | ubiB → | ubiquinone biosynthesis regulatory protein kinase UbiB |
| RA | NZ_CP022686 | 2,810,040 | A→C | 7.9% | N242T (AAC→ACC) | tatC → | Sec‑independent protein translocase subunit TatC |
| RA | NZ_CP022686 | 2,834,886 | A→C | 8.5% | K597N (AAA→AAC) | polA → | DNA polymerase I |
| RA | NZ_CP022686 | 2,868,740 | T→G | 23.1% | Q22P (CAG→CCG) | fdoH ← | formate dehydrogenase O subunit beta |
| RA | NZ_CP022686 | 2,904,856 | T→G | 11.2% | K237N (AAA→AAC) | ftsN ← | cell division protein FtsN |
| RA | NZ_CP022686 | 2,904,915 | T→G | 9.0% | T218P (ACC→CCC) | ftsN ← | cell division protein FtsN |
| RA | NZ_CP022686 | 2,919,048 | A→C | 5.9% | L349V (TTA→GTA) | CIW80_RS14605 ← | hypothetical protein |
| RA | NZ_CP022686 | 2,920,408 | C→A | 6.7% | Q62K (CAA→AAA) | CIW80_RS14610 → | bifunctional UDP‑sugar hydrolase/5'‑nucleotidase |
| RA | NZ_CP022686 | 3,020,229 | T→G | 12.9% | V133G (GTC→GGC) | yjbB → | Na/Pi cotransporter family protein |
| RA | NZ_CP022686 | 3,070,986 | T→G | 10.6% | G53G (GGT→GGG) | CIW80_RS15290 → | 2‑oxoglutarate dehydrogenase E1 component |
| RA | NZ_CP022686 | 3,080,495 | T→G | 7.2% | F170V (TTC→GTC) | CIW80_RS15320 → | Ldh family oxidoreductase |
| RA | NZ_CP022686 | 3,136,940 | T→G | 9.2% | D161A (GAC→GCC) | phnN ← | ribose 1,5‑bisphosphokinase |
| JC | NZ_CP022686 | 3,196,873 | +GCGTAATCGGTT | 100% | coding (944/1122 nt) | ampC ← | BlaEC family class C beta‑lactamase |
| RA | NZ_CP022686 | 3,200,595 | A→C | 7.7% | V199G (GTT→GGT) | frdA ← | fumarate reductase (quinol) flavoprotein subunit |
| RA | NZ_CP022686 | 3,252,190 | T→G | 15.1% | K221N (AAA→AAC) | CIW80_RS16225 ← | enoyl‑CoA hydratase/isomerase family protein |
| RA | NZ_CP022686 | 3,281,004 | T→G | 11.2% | F75V (TTT→GTT) | yjfF → | sugar ABC transporter permease YjfF |
| RA | NZ_CP022686 | 3,281,059 | T→G | 14.2% | L93R (CTG→CGG) | yjfF → | sugar ABC transporter permease YjfF |
| RA | NZ_CP022686 | 3,297,360 | T→G | 8.1% | L837V (TTA→GTA) | mgtA → | magnesium‑translocating P‑type ATPase |
| RA | NZ_CP022686 | 3,348,345 | G→T | 5.9% | intergenic (‑161/‑39) | CIW80_RS16685 ← / → CIW80_RS26495 | inovirus Gp2 family protein/hypothetical protein |
| RA | NZ_CP022686 | 3,348,357 | T→G | 11.1% | intergenic (‑173/‑27) | CIW80_RS16685 ← / → CIW80_RS26495 | inovirus Gp2 family protein/hypothetical protein |
| RA | NZ_CP022686 | 3,348,359 | A→T | 5.4% | intergenic (‑175/‑25) | CIW80_RS16685 ← / → CIW80_RS26495 | inovirus Gp2 family protein/hypothetical protein |
| RA | NZ_CP022686 | 3,363,082 | G→T | 9.4% | intergenic (+781/‑10) | CIW80_RS16815 → / → CIW80_RS16820 | helix‑turn‑helix domain‑containing protein/Alw26I/Eco31I/Esp3I family type II restriction adenine‑specific DNA‑methyltransferase |
| RA | NZ_CP022686 | 3,376,248 | A→C | 5.0% | K152N (AAA→AAC) | mtnA → | S‑methyl‑5‑thioribose‑1‑phosphate isomerase |
| RA | NZ_CP022686 | 3,387,116 | A→C | 11.9% | F86V (TTT→GTT) | sgcA ← | SgcA family PTS sugar transporter subunit IIA |
| RA | NZ_CP022686 | 3,424,795 | A→C | 100% | intergenic (‑41/+27) | yjiJ ← / ← yjiK | MFS transporter/YjiK family protein |
| RA | NZ_CP022686 | 3,444,704 | T→G | 15.3% | T530P (ACC→CCC) | btsT ← | pyruvate/proton symporter BtsT |
| RA | NZ_CP022686 | 3,461,224 | T→G | 14.6% | intergenic (‑33/+2) | CIW80_RS17335 ← / ← CIW80_RS17340 | tRNA‑Leu/tRNA‑Leu |
| RA | NZ_CP022686 | 3,461,229 | T→G | 12.0% | noncoding (84/87 nt) | CIW80_RS17340 ← | tRNA‑Leu |
| RA | NZ_CP022686 | 3,461,247 | A→C | 10.6% | noncoding (66/87 nt) | CIW80_RS17340 ← | tRNA‑Leu |
| RA | NZ_CP022686 | 3,510,388 | A→C | 9.0% | T284P (ACC→CCC) | dnaJ → | molecular chaperone DnaJ |
| RA | NZ_CP022686 | 3,547,355 | T→G | 7.0% | V99G (GTT→GGT) | folA → | type 3 dihydrofolate reductase |
| RA | NZ_CP022686 | 3,547,368 | C→A | 5.9% | F103L (TTC→TTA) | folA → | type 3 dihydrofolate reductase |
| RA | NZ_CP022686 | 3,604,564 | G→T | 15.5% | intergenic (+80/‑151) | lpxC → / → secM | UDP‑3‑O‑acyl‑N‑acetylglucosamine deacetylase/secA translation cis‑regulator SecM |
| RA | NZ_CP022686 | 3,652,079 | T→G | 12.3% | intergenic (‑88/+24) | panB ← / ← CIW80_RS18255 | 3‑methyl‑2‑oxobutanoate hydroxymethyltransferase/fimbrial‑like adhesin |
| RA | NZ_CP022686 | 3,655,528 | C→A | 5.6% | E769* (GAA→TAA) | htrE ← | outer membrane usher protein |
| RA | NZ_CP022686 | 3,655,541 | G→C | 5.7% | V764V (GTC→GTG) | htrE ← | outer membrane usher protein |
| RA | NZ_CP022686 | 3,656,188 | A→G | 100% | S549P (TCC→CCC) | htrE ← | outer membrane usher protein |
| RA | NZ_CP022686 | 3,734,367 | T→G | 17.8% | F225V (TTT→GTT) | yafD → | endonuclease/exonuclease/phosphatase family protein |
| RA | NZ_CP022686 | 3,734,380 | T→G | 16.7% | L229R (CTC→CGC) | yafD → | endonuclease/exonuclease/phosphatase family protein |
| RA | NZ_CP022686 | 3,792,805 | A→G | 100% | Y421C (TAC→TGC) | fucP → | L‑fucose:H+ symporter permease |
| RA | NZ_CP022686 | 3,797,481 | T→G | 19.3% | L130V (TTA→GTA) | CIW80_RS19065 → | LacI family DNA‑binding transcriptional regulator |
| RA | NZ_CP022686 | 3,797,493 | G→T | 15.4% | G134C (GGT→TGT) | CIW80_RS19065 → | LacI family DNA‑binding transcriptional regulator |
| RA | NZ_CP022686 | 3,806,256 | G→T | 13.7% | E1583* (GAA→TAA) | cdiA → | contact‑dependent inhibition effector tRNA nuclease |
| RA | NZ_CP022686 | 3,852,459 | T→G | 9.6% | N178T (AAC→ACC) | phoE ← | phosphoporin PhoE |
| RA | NZ_CP022686 | 3,868,857 | T→G | 7.9% | N379T (AAC→ACC) | ecpC ← | fimbrial usher EcpC |
| RA | NZ_CP022686 | 3,928,345 | T→G | 9.4% | F277V (TTC→GTC) | prpE → | propionate‑‑CoA ligase |
| RA | NZ_CP022686 | 3,935,324 | T→G | 14.1% | N705T (AAC→ACC) | lacZ ← | beta‑galactosidase |
| RA | NZ_CP022686 | 3,940,707 | A→C | 12.1% | F314V (TTT→GTT) | frmA ← | S‑(hydroxymethyl)glutathione dehydrogenase |
| RA | NZ_CP022686 | 3,940,724 | A→C | 7.2% | V308G (GTA→GGA) | frmA ← | S‑(hydroxymethyl)glutathione dehydrogenase |
| RA | NZ_CP022686 | 3,977,631 | A→C | 9.9% | H80P (CAC→CCC) | phoR → | phosphate regulon sensor histidine kinase PhoR |
| RA | NZ_CP022686 | 3,977,656 | A→C | 14.2% | K88N (AAA→AAC) | phoR → | phosphate regulon sensor histidine kinase PhoR |
| RA | NZ_CP022686 | 3,979,381 | T→G | 9.3% | L96R (CTT→CGT) | brnQ → | branched‑chain amino acid transporter carrier protein BrnQ |
| RA | NZ_CP022686 | 4,014,238 | C→G | 10.4% | intergenic (+84/‑260) | bolA → / → tig | transcriptional regulator BolA/trigger factor |
| RA | NZ_CP022686 | 4,056,951 | C→A | 16.9% | H134N (CAC→AAC) | adk → | adenylate kinase |
| RA | NZ_CP022686 | 4,056,962 | C→A | 19.8% | F137L (TTC→TTA) | adk → | adenylate kinase |
| RA | NZ_CP022686 | 4,074,902 | G→T | 14.4% | S23* (TCG→TAG) | CIW80_RS20380 ← | hypothetical protein |
| RA | NZ_CP022686 | 4,079,332 | A→C | 8.7% | W169G (TGG→GGG) | ybbO ← | NADP(+)‑dependent aldehyde reductase |
| RA | NZ_CP022686 | 4,133,850 | T→G | 9.8% | K113N (AAA→AAC) | ybdF ← | MmcQ/YjbR family DNA‑binding protein |
| RA | NZ_CP022686 | 4,280,095 | T→G | 7.5% | G103G (GGT→GGG) | cydB → | cytochrome d ubiquinol oxidase subunit II |
| RA | NZ_CP022686 | 4,331,940 | A→C | 17.1% | F289V (TTT→GTT) | ybhR ← | ABC transporter permease |
| RA | NZ_CP022686 | 4,368,341 | T→G | 8.3% | D47A (GAC→GCC) | ybiY ← | glycyl‑radical enzyme activating protein |
| RA | NZ_CP022686 | 4,368,372 | T→G | 15.3% | S37R (AGC→CGC) | ybiY ← | glycyl‑radical enzyme activating protein |
| RA | NZ_CP022686 | 4,368,380 | T→G | 8.1% | N34T (AAC→ACC) | ybiY ← | glycyl‑radical enzyme activating protein |
| RA | NZ_CP022686 | 4,368,387 | A→C | 8.1% | C32G (TGT→GGT) | ybiY ← | glycyl‑radical enzyme activating protein |
| RA | NZ_CP022686 | 4,439,653 | A→C | 9.8% | K570N (AAA→AAC) | ftsK → | DNA translocase FtsK |
| RA | NZ_CP022686 | 4,440,314 | T→G | 12.2% | Y791D (TAT→GAT) | ftsK → | DNA translocase FtsK |
| RA | NZ_CP022686 | 4,587,091 | T→G | 9.7% | N609T (AAC→ACC) | CIW80_RS22915 ← | enterotoxin |
| RA | NZ_CP022686 | 4,632,182 | T→G | 8.1% | R276R (CGT→CGG) | mchF → | microcin export transporter peptidase/ATP‑binding subunit MchF |
| RA | NZ_CP022686 | 4,642,951 | A→C | 8.7% | N732T (AAC→ACC) | sfaF → | S/F1C fimbrial usher SfaF/FocD |
| RA | NZ_CP022686 | 4,661,459 | T→G | 7.6% | pseudogene (559/655 nt) | CIW80_RS26570 → | hypothetical protein |
| RA | NZ_CP022686 | 4,678,033 | T→G | 40.1% | intergenic (+31/‑90) | agn43 → / → CIW80_RS23450 | autotransporter adhesin Ag43/hypothetical protein |
| RA | NZ_CP022686 | 4,678,047 | A→C | 25.4% | intergenic (+45/‑76) | agn43 → / → CIW80_RS23450 | autotransporter adhesin Ag43/hypothetical protein |
| RA | NZ_CP022686 | 4,764,877 | T→G | 12.8% | intergenic (‑57/‑204) | ycfT ← / → lolC | acyltransferase family protein/lipoprotein‑releasing ABC transporter permease subunit LolC |
| RA | NZ_CP022686 | 4,780,176 | A→C | 16.1% | intergenic (‑75/+95) | phoP ← / ← purB | two‑component system response regulator PhoP/adenylosuccinate lyase |
| RA | NZ_CP022686 | 4,839,687 | T→G | 8.9% | N144T (AAC→ACC) | minD ← | septum site‑determining protein MinD |
| RA | NZ_CP022686 | 4,870,912 | Δ1 bp | 100% | intergenic (‑108/‑120) | dhaK ← / → dhaR | dihydroxyacetone kinase subunit DhaK/dihydroxyacetone kinase operon transcriptional regulator DhaR |
| RA | NZ_CP022686 | 4,905,170 | T→G | 15.2% | V99G (GTT→GGT) | CIW80_RS24815 → | coenzyme F390 synthetase |
| RA | NZ_CP022686 | 4,910,213 | A→C | 9.0% | F48V (TTT→GTT) | purU ← | formyltetrahydrofolate deformylase |
| RA | NZ_CP022686 | 4,916,128 | A→C | 5.7% | intergenic (+255/+30) | tdk → / ← CIW80_RS24885 | thymidine kinase/IS4 family transposase |
| RA | NZ_CP022686 | 4,951,512 | G→T | 9.8% | D36Y (GAT→TAT) | topA → | type I DNA topoisomerase |
| RA | NZ_CP022686 | 5,001,164 | A→C | 11.0% | N163T (AAC→ACC) | ompG → | monomeric porin OmpG |
| RA | NZ_CP022686 | 5,023,943 | C→G | 6.7% | intergenic (+209/‑269) | zntB → / → dbpA | zinc transporter ZntB/ATP‑dependent RNA helicase DbpA |
| RA | NZ_CP022686 | 5,042,250 | A→T | 8.1% | V627V (GTA→GTT) | CIW80_RS25525 → | EntS/YbdA MFS transporter |
| RA | NZ_CP022686 | 5,043,294 | G→C | 5.5% | S975S (TCG→TCC) | CIW80_RS25525 → | EntS/YbdA MFS transporter |
| RA | NZ_CP022686 | 5,043,347 | A→G | 5.2% | N993S (AAT→AGT) | CIW80_RS25525 → | EntS/YbdA MFS transporter |
| RA | NZ_CP022686 | 5,043,558 | T→C | 7.1% | S1063S (AGT→AGC) | CIW80_RS25525 → | EntS/YbdA MFS transporter |
| RA | NZ_CP022686 | 5,043,855 | T→A | 12.9% | G1162G (GGT→GGA) | CIW80_RS25525 → | EntS/YbdA MFS transporter |
| RA | pMut‑Ompa‑D5‑IL2wt‑His6 | 2,031 | G→A | 100% | intergenic (‑235/‑1500) | putative rom (RNA I inhibition modulator protein) ← / → ompA | –/– |
| JC | pMut‑Ompa‑D5‑IL2wt‑His6 | 3,595 | Δ15 bp | 100% | [IL2wt no signal] | [IL2wt no signal] | |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NZ_MW240712 | 380–2618 | 3057–2957 | 340–2678 | 5557 [5123] | [5363] 5389 | [JNG15_RS00005]–mobA | [JNG15_RS00005],JNG15_RS00010,JNG15_RS00015,mobA |
| * | * | ÷ | pMut‑Ompa‑D5‑IL2wt‑His6 | 4751–4810 | 5415–5214 | 405–665 | 3729 [3709] | [3463] 3869 | [putative HTH domain protein] | [putative HTH domain protein] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP022686 | 3743172 = | 231 (1.170) | 14 (0.070) | 12/248 | NT | 5.5% | intergenic (+1/+253) | CIW80_RS18695/CIW80_RS18700 | IS66 family transposase/IS110‑like element ISEc45 family transposase |
| ? | NZ_CP022686 | = 3744618 | 255 (1.310) | intergenic (‑60/‑4) | CIW80_RS18700/CIW80_RS18705 | IS110‑like element ISEc45 family transposase/transposase | |||||
| * | ? | NZ_CP022686 | 4514374 = | 215 (1.090) | 7 (0.000) +AGCT |
5/242 | NT | 6.1% | coding (59/1053 nt) | ompA | porin OmpA |
| ? | pMut‑Ompa‑D5‑IL2wt‑His6 | 3609 = | 7 (0.000) | coding (1/399 nt) | IL2wt no signal | ||||||