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 | 238,317 | G→C | 14.1% | L88V (CTT→GTT) | sufE ← | cysteine desulfuration protein SufE |
| RA | NZ_CP022686 | 263,831 | A→C | 9.4% | intergenic (+38/+19) | fadK → / ← ppsA | medium‑chain fatty‑acid‑‑CoA ligase/phosphoenolpyruvate synthase |
| RA | NZ_CP022686 | 316,794 | A→C | 6.7% | T113P (ACG→CCG) | ynjE → | thiosulfate sulfurtransferase YnjE |
| RA | NZ_CP022686 | 340,516 | A→C | 12.8% | F31V (TTT→GTT) | ydjK ← | MFS transporter |
| RA | NZ_CP022686 | 355,196 | C→A | 7.3% | R254L (CGA→CTA) | nimR ← | DNA‑binding transcriptional regulator NimR |
| RA | NZ_CP022686 | 360,227 | T→G | 14.9% | T35P (ACG→CCG) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| RA | NZ_CP022686 | 457,894 | Δ1 bp | 100% | pseudogene (288/997 nt) | CIW80_RS02445 ← | DUF968 domain‑containing protein |
| 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 | 597,830 | A→C | 12.2% | D452A (GAC→GCC) | irp1 → | yersiniabactin polyketide synthase HMWP1 |
| RA | NZ_CP022686 | 601,295 | T→G | 13.4% | V1607G (GTC→GGC) | irp1 → | yersiniabactin polyketide synthase HMWP1 |
| RA | NZ_CP022686 | 601,302 | T→G | 18.2% | R1609R (CGT→CGG) | irp1 → | yersiniabactin polyketide synthase HMWP1 |
| MC JC | NZ_CP022686 | 628,478 | Δ1,286 bp | 100% | [clbP] | [clbP] | |
| RA | NZ_CP022686 | 636,704 | A→C | 8.7% | R455R (CGT→CGG) | clbM ← | precolibactin export MATE transporter ClbM |
| RA | NZ_CP022686 | 651,848 | A→C | 11.1% | R238R (CGT→CGG) | clbJ ← | colibactin non‑ribosomal peptide synthetase ClbJ |
| RA | NZ_CP022686 | 693,021 | A→C | 8.3% | T121P (ACG→CCG) | CIW80_RS03550 → | YaiO family outer membrane beta‑barrel protein |
| RA | NZ_CP022686 | 694,391 | C→A | 10.4% | intergenic (+151/‑45) | CIW80_RS03555 → / → CIW80_RS03560 | transposase/PfkB family carbohydrate kinase |
| RA | NZ_CP022686 | 694,406 | G→T | 14.3% | intergenic (+166/‑30) | CIW80_RS03555 → / → CIW80_RS03560 | transposase/PfkB family carbohydrate kinase |
| RA | NZ_CP022686 | 694,447 | A→C | 9.5% | E4D (GAA→GAC) | CIW80_RS03560 → | PfkB family carbohydrate kinase |
| RA | NZ_CP022686 | 694,467 | A→C | 10.2% | K11T (AAA→ACA) | CIW80_RS03560 → | PfkB family carbohydrate kinase |
| RA | NZ_CP022686 | 756,115 | A→G | 100% | G181G (GGT→GGC) | galE ← | UDP‑glucose 4‑epimerase GalE |
| RA | NZ_CP022686 | 764,997 | T→G | 17.2% | N41T (AAC→ACC) | wcaM ← | colanic acid biosynthesis protein WcaM |
| RA | NZ_CP022686 | 766,763 | A→T | 11.6% | Y288* (TAT→TAA) | wcaK ← | colanic acid biosynthesis pyruvyl transferase WcaK |
| RA | NZ_CP022686 | 794,460 | C→T | 100% | A568V (GCG→GTG) | dgcE → | diguanylate cyclase |
| RA | NZ_CP022686 | 828,846 | A→C | 12.3% | L189R (CTT→CGT) | gatY ← | tagatose‑bisphosphate aldolase subunit GatY |
| RA | NZ_CP022686 | 829,452 | G→T | 21.8% | intergenic (‑41/+186) | gatY ← / ← fbaB | tagatose‑bisphosphate aldolase subunit GatY/class I fructose‑bisphosphate aldolase |
| RA | NZ_CP022686 | 859,943 | T→G | 11.7% | L602V (TTA→GTA) | yehM → | DUF5682 family protein |
| RA | NZ_CP022686 | 881,760 | T→G | 19.5% | intergenic (+275/+112) | 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 | 948,051 | G→T | 15.4% | intergenic (+120/‑137) | CIW80_RS04855 → / → CIW80_RS04860 | terminase small subunit/hypothetical protein |
| RA | NZ_CP022686 | 957,112 | T→G | 9.4% | T89P (ACC→CCC) | ccmA ← | cytochrome c biogenesis heme‑transporting ATPase CcmA |
| RA | NZ_CP022686 | 1,005,073 | A→C | 8.6% | E376D (GAA→GAC) | nrdA → | ribonucleoside‑diphosphate reductase subunit alpha |
| RA | NZ_CP022686 | 1,005,085 | C→A | 13.2% | T380T (ACC→ACA) | nrdA → | ribonucleoside‑diphosphate reductase subunit alpha |
| RA | NZ_CP022686 | 1,040,909 | A→C | 10.6% | E232D (GAA→GAC) | rbn → | ribonuclease BN |
| RA | NZ_CP022686 | 1,100,944 | T→G | 15.5% | D187A (GAC→GCC) | aroC ← | chorismate synthase |
| RA | NZ_CP022686 | 1,174,272 | A→C | 14.4% | intergenic (+1/‑43) | CIW80_RS05855 → / → CIW80_RS05860 | tRNA‑Val/tRNA‑Val |
| RA | NZ_CP022686 | 1,174,304 | A→T | 9.2% | intergenic (+33/‑11) | CIW80_RS05855 → / → CIW80_RS05860 | tRNA‑Val/tRNA‑Val |
| RA | NZ_CP022686 | 1,209,908 | T→G | 11.8% | D396A (GAC→GCC) | eutH ← | ethanolamine utilization protein EutH |
| RA | NZ_CP022686 | 1,213,462 | A→C | 31.4% | L426R (CTG→CGG) | eutE ← | aldehyde dehydrogenase EutE |
| RA | NZ_CP022686 | 1,257,267 | G→T | 7.3% | P289T (CCT→ACT) | pdeF ← | cyclic‑guanylate‑specific phosphodiesterase PdeF |
| RA | NZ_CP022686 | 1,269,551 | T→G | 6.2% | K1124N (AAA→AAC) | CIW80_RS06320 ← | DUF823 domain‑containing adhesin |
| RA | NZ_CP022686 | 1,319,599 | T→G | 9.1% | T329P (ACC→CCC) | glyA ← | serine hydroxymethyltransferase |
| RA | NZ_CP022686 | 1,353,233 | A→C | 13.7% | V72G (GTT→GGT) | yfiF ← | tRNA/rRNA methyltransferase |
| RA | NZ_CP022686 | 1,360,709 | T→G | 7.5% | intergenic (‑44/+280) | kgtP ← / ← rrf | alpha‑ketoglutarate permease/5S ribosomal RNA |
| RA | NZ_CP022686 | 1,360,724 | G→T | 11.4% | intergenic (‑59/+265) | kgtP ← / ← rrf | alpha‑ketoglutarate permease/5S ribosomal RNA |
| RA | NZ_CP022686 | 1,360,762 | G→T | 8.7% | intergenic (‑97/+227) | kgtP ← / ← rrf | alpha‑ketoglutarate permease/5S ribosomal RNA |
| RA | NZ_CP022686 | 1,366,270 | T→G | 7.0% | intergenic (‑271/+171) | CIW80_RS06740 ← / ← clpB | 16S ribosomal RNA/ATP‑dependent chaperone ClpB |
| RA | NZ_CP022686 | 1,371,081 | C→A | 14.2% | P32Q (CCA→CAA) | bamD → | outer membrane protein assembly factor BamD |
| RA | NZ_CP022686 | 1,424,343 | A→C | 10.0% | intergenic (‑39/+24) | CIW80_RS07085 ← / ← CIW80_RS07090 | tRNA‑Arg/tRNA‑Arg |
| RA | NZ_CP022686 | 1,460,615 | A→C | 13.5% | K673N (AAA→AAC) | flhA → | formate hydrogenlyase transcriptional activator FlhA |
| RA | NZ_CP022686 | 1,504,258 | G→T | 13.0% | S232I (AGT→ATT) | CIW80_RS07520 → | YgcG family protein |
| RA | NZ_CP022686 | 1,504,289 | T→G | 9.9% | R242R (CGT→CGG) | CIW80_RS07520 → | YgcG family protein |
| RA | NZ_CP022686 | 1,504,355 | T→A | 14.0% | A264A (GCT→GCA) | CIW80_RS07520 → | YgcG family protein |
| RA | NZ_CP022686 | 1,535,307 | A→C | 12.1% | D16A (GAC→GCC) | fucI → | L‑fucose isomerase |
| RA | NZ_CP022686 | 1,535,362 | G→C | 19.4% | A34A (GCG→GCC) | fucI → | L‑fucose isomerase |
| RA | NZ_CP022686 | 1,558,395 | A→C | 15.3% | K464N (AAA→AAC) | vgrG → | type VI secretion system Vgr family protein |
| RA | NZ_CP022686 | 1,564,543 | A→C | 7.3% | S182R (AGC→CGC) | CIW80_RS07780 → | ImcF‑related family protein |
| RA | NZ_CP022686 | 1,564,569 | A→C | 11.5% | K190N (AAA→AAC) | CIW80_RS07780 → | ImcF‑related family protein |
| RA | NZ_CP022686 | 1,564,573 | T→G | 9.3% | W192G (TGG→GGG) | CIW80_RS07780 → | ImcF‑related family protein |
| RA | NZ_CP022686 | 1,571,260 | A→C | 7.0% | T188P (ACG→CCG) | tssG → | type VI secretion system baseplate subunit TssG |
| RA | NZ_CP022686 | 1,572,179 | G→T | 8.6% | E141* (GAA→TAA) | tssJ → | type VI secretion system lipoprotein TssJ |
| RA | NZ_CP022686 | 1,597,235 | T→G | 6.8% | N19H (AAC→CAC) | thyA ← | thymidylate synthase |
| RA | NZ_CP022686 | 1,632,501 | T→G | 10.1% | V166G (GTT→GGT) | arcC → | carbamate kinase |
| RA | NZ_CP022686 | 1,632,537 | T→G | 5.2% | V178G (GTA→GGA) | arcC → | carbamate kinase |
| RA | NZ_CP022686 | 1,633,846 | T→G | 34.0% | N253T (AAC→ACC) | yqeB ← | selenium‑dependent molybdenum cofactor biosynthesis protein YqeB |
| RA | NZ_CP022686 | 1,640,925 | A→C | 10.3% | R7S (AGA→AGC) | ygfM → | molybdopterin‑dependent oxidoreductase FAD‑binding subunit |
| RA | NZ_CP022686 | 1,674,244 | T→G | 17.0% | T182P (ACC→CCC) | ygfB ← | UPF0149 family protein YgfB |
| RA | NZ_CP022686 | 1,674,248 | T→G | 8.8% | Q180H (CAA→CAC) | ygfB ← | UPF0149 family protein YgfB |
| RA | NZ_CP022686 | 1,674,260 | A→T | 5.5% | F176L (TTT→TTA) | ygfB ← | UPF0149 family protein YgfB |
| RA | NZ_CP022686 | 1,706,011 | G→T | 8.8% | intergenic (‑621/‑34) | yqgB ← / → metK | acid stress response protein YqgB/methionine adenosyltransferase |
| RA | NZ_CP022686 | 1,706,032 | G→T | 12.3% | intergenic (‑642/‑13) | yqgB ← / → metK | acid stress response protein YqgB/methionine adenosyltransferase |
| RA | NZ_CP022686 | 1,706,047 | G→T | 12.1% | M1M (ATG→ATT) † | metK → | methionine adenosyltransferase |
| RA | NZ_CP022686 | 1,716,145 | A→C | 9.3% | T42P (ACC→CCC) | rdgB → | XTP/dITP diphosphatase |
| RA | NZ_CP022686 | 1,735,934 | A→C | 11.7% | pseudogene (335/569 nt) | papA ← | P fimbria major subunit PapA |
| RA | NZ_CP022686 | 1,775,845 | T→G | 7.8% | N198T (AAC→ACC) | CIW80_RS08815 ← | N‑acetylneuraminate epimerase |
| RA | NZ_CP022686 | 1,805,056 | A→C | 13.1% | pseudogene (337/934 nt) | CIW80_RS09020 → | nucleotidyl transferase AbiEii/AbiGii toxin family protein |
| RA | NZ_CP022686 | 1,888,362 | T→G | 11.6% | V241G (GTT→GGT) | yqhG → | YbjP/YqhG family protein |
| RA | NZ_CP022686 | 1,939,084 | A→C | 5.6% | T36P (ACC→CCC) | ubiK → | ubiquinone biosynthesis accessory factor UbiK |
| RA | NZ_CP022686 | 1,954,923 | T→G | 18.9% | T92P (ACG→CCG) | ttdR ← | DNA‑binding transcriptional activator TtdR |
| RA | NZ_CP022686 | 1,964,373 | A→C | 7.1% | F14V (TTT→GTT) | mug ← | G/U mismatch‑specific DNA glycosylase |
| RA | NZ_CP022686 | 1,965,173 | A→C | 9.0% | R86R (CGT→CGG) | nfeF ← | NADPH‑dependent ferric chelate reductase |
| RA | NZ_CP022686 | 2,037,521 | A→C | 11.8% | T508P (ACC→CCC) | lpoA → | penicillin‑binding protein activator LpoA |
| RA | NZ_CP022686 | 2,056,191 | G→C | 7.9% | R607G (CGT→GGT) | infB ← | translation initiation factor IF‑2 |
| RA | NZ_CP022686 | 2,072,584 | A→C | 8.3% | A340A (GCT→GCG) | cgtA ← | Obg family GTPase CgtA |
| RA | NZ_CP022686 | 2,076,554 | T→G | 8.5% | intergenic (+24/‑209) | ispB → / → sfsB | octaprenyl diphosphate synthase/DNA‑binding transcriptional regulator SfsB |
| RA | NZ_CP022686 | 2,101,787 | A→C | 11.1% | H246P (CAC→CCC) | gltD → | glutamate synthase subunit GltD |
| RA | NZ_CP022686 | 2,110,465 | T→G | 6.8% | T10P (ACC→CCC) | rplM ← | 50S ribosomal protein L13 |
| RA | NZ_CP022686 | 2,123,241 | A→C | 9.8% | F208V (TTT→GTT) | tldD ← | metalloprotease TldD |
| RA | NZ_CP022686 | 2,148,115 | T→G | 10.5% | L126R (CTG→CGG) | panF → | sodium/pantothenate symporter |
| RA | NZ_CP022686 | 2,148,122 | T→G | 8.5% | S128R (AGT→AGG) | panF → | sodium/pantothenate symporter |
| RA | NZ_CP022686 | 2,148,136 | T→G | 10.3% | V133G (GTT→GGT) | panF → | sodium/pantothenate symporter |
| RA | NZ_CP022686 | 2,148,141 | T→G | 12.8% | F135V (TTC→GTC) | panF → | sodium/pantothenate symporter |
| RA | NZ_CP022686 | 2,159,641 | T→A | 7.2% | D156E (GAT→GAA) | CIW80_RS10780 → | amino acid ABC transporter substrate‑binding protein |
| RA | NZ_CP022686 | 2,159,652 | A→C | 6.4% | N160T (AAC→ACC) | CIW80_RS10780 → | amino acid ABC transporter substrate‑binding protein |
| RA | NZ_CP022686 | 2,172,177 | A→C | 7.0% | G87G (GGT→GGG) | smg ← | DUF494 family protein Smg |
| RA | NZ_CP022686 | 2,185,075 | A→C | 9.0% | V46G (GTT→GGT) | rpsE ← | 30S ribosomal protein S5 |
| RA | NZ_CP022686 | 2,188,239 | G→T | 5.6% | intergenic (‑108/+57) | rplN ← / ← rpsQ | 50S ribosomal protein L14/30S ribosomal protein S17 |
| RA | NZ_CP022686 | 2,214,419 | T→C | 100% | K43R (AAA→AGA) | rpsL ← | 30S ribosomal protein S12 |
| RA | NZ_CP022686 | 2,215,206 | C→A | 8.0% | A41S (GCT→TCT) | tusC ← | sulfurtransferase complex subunit TusC |
| RA | NZ_CP022686 | 2,272,831 | G→T | 7.9% | intergenic (+73/‑24) | greB → / → yhgF | transcription elongation factor GreB/Tex family protein |
| RA | NZ_CP022686 | 2,320,775 | C→T | 100% | G274S (GGC→AGC) | CIW80_RS11675 ← | DNA‑processing protein DprA |
| RA | NZ_CP022686 | 2,357,291 | A→C | 9.5% | N26T (AAC→ACC) | dcrB → | phage sensitivity protein DcrB |
| RA | NZ_CP022686 | 2,357,324 | A→C | 18.8% | N37T (AAC→ACC) | dcrB → | phage sensitivity protein DcrB |
| RA | NZ_CP022686 | 2,361,489 | T→G | 11.4% | V188G (GTT→GGT) | nikA → | nickel ABC transporter substrate‑binding protein |
| RA | NZ_CP022686 | 2,361,493 | A→T | 12.0% | L189F (TTA→TTT) | nikA → | nickel ABC transporter substrate‑binding protein |
| RA | NZ_CP022686 | 2,393,015 | A→T | 6.9% | M1M (ATG→TTG) † | dctR → | LuxR C‑terminal‑related transcriptional regulator |
| RA | NZ_CP022686 | 2,394,287 | T→G | 18.4% | N115T (AAC→ACC) | chuS ← | hematinate‑forming heme oxygenase ChuS |
| RA | NZ_CP022686 | 2,397,379 | C→A | 11.7% | S12Y (TCC→TAC) | chuT → | heme ABC transporter substrate‑binding protein ChuT |
| RA | NZ_CP022686 | 2,408,861 | Δ1 bp | 100% | pseudogene (1097/3115 nt) | mdtF → | multidrug efflux pump RND permease MdtF |
| RA | NZ_CP022686 | 2,460,523 | A→C | 7.2% | V19G (GTA→GGA) | yhjY ← | autotransporter outer membrane beta‑barrel domain‑containing protein |
| RA | NZ_CP022686 | 2,460,576 | C→A | 16.6% | M1M (ATG→ATT) † | yhjY ← | autotransporter outer membrane beta‑barrel domain‑containing protein |
| RA | NZ_CP022686 | 2,470,422 | T→G | 9.5% | K72N (AAA→AAC) | glyS ← | glycine‑‑tRNA ligase subunit beta |
| RA | NZ_CP022686 | 2,516,888 | A→T | 5.8% | T766T (ACA→ACT) | upaG → | trimeric autotransporter adhesin UpaG |
| RA | NZ_CP022686 | 2,546,408 | C→A | 12.0% | M90I (ATG→ATT) | waaG ← | glycosyltransferase family 4 protein |
| RA | NZ_CP022686 | 2,555,361 | G→T | 6.7% | Q5K (CAG→AAG) | pyrE ← | orotate phosphoribosyltransferase |
| RA | NZ_CP022686 | 2,572,721 | A→C | 14.8% | F186C (TTT→TGT) | CIW80_RS12885 ← | ROK family protein |
| RA | NZ_CP022686 | 2,574,429 | T→G | 10.2% | N230T (AAC→ACC) | CIW80_RS12895 ← | class II fructose‑bisphosphate aldolase family protein |
| JC | NZ_CP022686 | 2,590,563 | +TTGG | 100% | coding (109/153 nt) | CIW80_RS26455 → | hypothetical protein |
| RA | NZ_CP022686 | 2,717,400 | T→G | 8.3% | L101V (TTA→GTA) | ilvA → | threonine ammonia‑lyase, biosynthetic |
| RA | NZ_CP022686 | 2,736,585 | T→A | 6.6% | Y183N (TAC→AAC) | rffA → | dTDP‑4‑amino‑4,6‑dideoxygalactose transaminase |
| RA | NZ_CP022686 | 2,743,582 | A→C | 20.2% | noncoding (84/87 nt) | CIW80_RS13750 → | tRNA‑Leu |
| RA | NZ_CP022686 | 2,743,601 | G→T | 12.1% | intergenic (+16/‑27) | CIW80_RS13750 → / → CIW80_RS13755 | tRNA‑Leu/tRNA‑Pro |
| RA | NZ_CP022686 | 2,747,591 | T→G | 5.8% | N395T (AAC→ACC) | hemY ← | protoheme IX biogenesis protein HemY |
| RA | NZ_CP022686 | 2,758,144 | A→C | 7.1% | T46P (ACG→CCG) | yifL → | lipoprotein |
| RA | NZ_CP022686 | 2,772,982 | C→G | 6.0% | V26V (GTC→GTG) | rhtC → | threonine export protein RhtC |
| RA | NZ_CP022686 | 2,780,149 | T→G | 6.3% | V690G (GTC→GGC) | metE → | 5‑methyltetrahydropteroyltriglutamate‑‑ homocysteine S‑methyltransferase |
| RA | NZ_CP022686 | 2,821,644 | A→C | 8.6% | intergenic (+100/‑278) | hemG → / → CIW80_RS14130 | menaquinone‑dependent protoporphyrinogen IX dehydrogenase/16S ribosomal RNA |
| RA | NZ_CP022686 | 2,834,886 | A→C | 8.6% | K597N (AAA→AAC) | polA → | DNA polymerase I |
| RA | NZ_CP022686 | 2,834,898 | A→C | 7.5% | K601N (AAA→AAC) | polA → | DNA polymerase I |
| RA | NZ_CP022686 | 2,868,740 | T→G | 31.3% | Q22P (CAG→CCG) | fdoH ← | formate dehydrogenase O subunit beta |
| RA | NZ_CP022686 | 2,868,742 | A→C | 10.9% | P21P (CCT→CCG) | fdoH ← | formate dehydrogenase O subunit beta |
| RA | NZ_CP022686 | 2,868,753 | T→G | 14.0% | T18P (ACC→CCC) | fdoH ← | formate dehydrogenase O subunit beta |
| RA | NZ_CP022686 | 2,871,422 | T→G | 7.1% | N149T (AAC→ACC) | fdnG ← | formate dehydrogenase‑N subunit alpha |
| RA | NZ_CP022686 | 2,937,218 | C→A | 7.8% | E216* (GAA→TAA) | yijO ← | AraC family transcriptional regulator |
| RA | NZ_CP022686 | 2,989,627 | T→G | 10.2% | Q39H (CAA→CAC) | thiC ← | phosphomethylpyrimidine synthase ThiC |
| RA | NZ_CP022686 | 2,992,831 | A→C | 7.2% | K133T (AAA→ACA) | nfi → | deoxyribonuclease V |
| RA | NZ_CP022686 | 2,994,693 | T→G | 8.7% | W162G (TGG→GGG) | yjaH → | DUF1481 domain‑containing protein |
| RA | NZ_CP022686 | 3,017,622 | A→C | 15.6% | K839N (AAA→AAC) | metH → | methionine synthase |
| RA | NZ_CP022686 | 3,020,229 | T→G | 15.8% | V133G (GTC→GGC) | yjbB → | Na/Pi cotransporter family protein |
| RA | NZ_CP022686 | 3,066,354 | T→G | 8.4% | K134N (AAA→AAC) | CIW80_RS15265 ← | hypothetical protein |
| RA | NZ_CP022686 | 3,090,101 | A→C | 6.7% | V9G (GTT→GGT) | yjcB ← | YjcB family protein |
| RA | NZ_CP022686 | 3,098,847 | A→C | 6.7% | intergenic (+17/+22) | CIW80_RS15415 → / ← actP | LrgB family protein/cation/acetate symporter ActP |
| RA | NZ_CP022686 | 3,118,637 | T→G | 5.2% | intergenic (‑335/+40) | CIW80_RS15515 ← / ← fdhF | ABC transporter substrate‑binding protein/formate dehydrogenase H subunit alpha, selenocysteine‑containing |
| RA | NZ_CP022686 | 3,136,940 | T→G | 10.4% | D161A (GAC→GCC) | phnN ← | ribose 1,5‑bisphosphokinase |
| RA | NZ_CP022686 | 3,184,651 | A→C | 8.1% | intergenic (‑98/+18) | cutA ← / ← dcuA | divalent cation tolerance protein CutA/anaerobic C4‑dicarboxylate transporter DcuA |
| 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 | 7.6% | V199G (GTT→GGT) | frdA ← | fumarate reductase (quinol) flavoprotein subunit |
| RA | NZ_CP022686 | 3,252,190 | T→G | 9.9% | K221N (AAA→AAC) | CIW80_RS16225 ← | enoyl‑CoA hydratase/isomerase family protein |
| RA | NZ_CP022686 | 3,281,004 | T→G | 8.7% | F75V (TTT→GTT) | yjfF → | sugar ABC transporter permease YjfF |
| RA | NZ_CP022686 | 3,348,357 | T→G | 10.8% | intergenic (‑173/‑27) | CIW80_RS16685 ← / → CIW80_RS26495 | inovirus Gp2 family protein/hypothetical protein |
| RA | NZ_CP022686 | 3,387,116 | A→C | 11.7% | F86V (TTT→GTT) | sgcA ← | SgcA family PTS sugar transporter subunit IIA |
| RA | NZ_CP022686 | 3,395,243 | G→T | 8.2% | pseudogene (13/1107 nt) | yjhR → | helicase YjhR |
| 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 | 13.3% | T530P (ACC→CCC) | btsT ← | pyruvate/proton symporter BtsT |
| RA | NZ_CP022686 | 3,451,845 | A→C | 8.2% | E278D (GAA→GAC) | lgoD → | L‑galactonate oxidoreductase |
| RA | NZ_CP022686 | 3,461,229 | T→G | 13.8% | noncoding (84/87 nt) | CIW80_RS17340 ← | tRNA‑Leu |
| RA | NZ_CP022686 | 3,469,923 | T→G | 6.6% | E122D (GAA→GAC) | yjjW ← | YjjW family glycine radical enzyme activase |
| RA | NZ_CP022686 | 3,496,461 | T→G | 8.9% | F276V (TTT→GTT) | thrA → | bifunctional aspartate kinase/homoserine dehydrogenase I |
| RA | NZ_CP022686 | 3,514,511 | A→C | 7.6% | S190R (AGC→CGC) | CIW80_RS17610 → | hypothetical protein |
| RA | NZ_CP022686 | 3,516,075 | T→G | 5.7% | V213G (GTG→GGG) | nhaA → | Na+/H+ antiporter NhaA |
| MC JC | NZ_CP022686 | 3,559,837 | Δ2,343 bp | 100% | coding (10‑2352/2352 nt) | polB ← | DNA polymerase II |
| RA | NZ_CP022686 | 3,606,036 | G→T | 12.2% | E250* (GAA→TAA) | secA → | preprotein translocase subunit SecA |
| RA | NZ_CP022686 | 3,606,984 | C→A | 26.2% | R566S (CGT→AGT) | secA → | preprotein translocase subunit SecA |
| RA | NZ_CP022686 | 3,656,188 | A→G | 100% | S549P (TCC→CCC) | htrE ← | outer membrane usher protein |
| RA | NZ_CP022686 | 3,660,424 | A→T | 9.3% | W374R (TGG→AGG) | pcnB ← | polynucleotide adenylyltransferase PcnB |
| RA | NZ_CP022686 | 3,661,525 | T→A | 8.4% | N7Y (AAT→TAT) | pcnB ← | polynucleotide adenylyltransferase PcnB |
| RA | NZ_CP022686 | 3,703,648 | A→C | 6.4% | T120P (ACG→CCG) | fabZ → | 3‑hydroxyacyl‑ACP dehydratase FabZ |
| RA | NZ_CP022686 | 3,725,969 | A→C | 6.3% | K188N (AAA→AAC) | gmhB → | D‑glycero‑beta‑D‑manno‑heptose 1,7‑bisphosphate 7‑phosphatase |
| RA | NZ_CP022686 | 3,734,367 | T→G | 21.6% | F225V (TTT→GTT) | yafD → | endonuclease/exonuclease/phosphatase family protein |
| RA | NZ_CP022686 | 3,734,380 | T→G | 16.2% | L229R (CTC→CGC) | yafD → | endonuclease/exonuclease/phosphatase family protein |
| RA | NZ_CP022686 | 3,770,508 | T→G | 11.8% | intergenic (‑244/+219) | CIW80_RS26265 ← / ← CIW80_RS18890 | ATP‑binding protein/hypothetical protein |
| RA | NZ_CP022686 | 3,770,526 | C→G | 5.9% | intergenic (‑262/+201) | CIW80_RS26265 ← / ← CIW80_RS18890 | ATP‑binding protein/hypothetical protein |
| RA | NZ_CP022686 | 3,792,805 | A→G | 100% | Y421C (TAC→TGC) | fucP → | L‑fucose:H+ symporter permease |
| RA | NZ_CP022686 | 3,797,493 | G→T | 11.7% | G134C (GGT→TGT) | CIW80_RS19065 → | LacI family DNA‑binding transcriptional regulator |
| RA | NZ_CP022686 | 3,806,256 | G→T | 12.6% | E1583* (GAA→TAA) | cdiA → | contact‑dependent inhibition effector tRNA nuclease |
| MC JC | NZ_CP022686 | 3,844,426 | Δ1,036 bp | 100% | coding (2‑1037/1056 nt) | dinB → | DNA polymerase IV |
| RA | NZ_CP022686 | 3,868,846 | T→G | 9.0% | T383P (ACG→CCG) | ecpC ← | fimbrial usher EcpC |
| RA | NZ_CP022686 | 3,885,457 | A→C | 8.4% | N1404T (AAC→ACC) | fdeC → | inverse autotransporter adhesin FdeC |
| RA | NZ_CP022686 | 3,925,289 | A→C | 18.8% | N156T (AAC→ACC) | prpC → | 2‑methylcitrate synthase |
| RA | NZ_CP022686 | 3,925,309 | G→T | 13.6% | E163* (GAA→TAA) | prpC → | 2‑methylcitrate synthase |
| RA | NZ_CP022686 | 3,928,345 | T→G | 9.7% | F277V (TTC→GTC) | prpE → | propionate‑‑CoA ligase |
| RA | NZ_CP022686 | 3,928,369 | T→G | 9.0% | W285G (TGG→GGG) | prpE → | propionate‑‑CoA ligase |
| RA | NZ_CP022686 | 3,935,324 | T→G | 13.4% | N705T (AAC→ACC) | lacZ ← | beta‑galactosidase |
| RA | NZ_CP022686 | 3,935,341 | T→G | 6.9% | V699V (GTA→GTC) | lacZ ← | beta‑galactosidase |
| RA | NZ_CP022686 | 3,949,969 | T→G | 9.5% | D141A (GAC→GCC) | hemB ← | porphobilinogen synthase |
| RA | NZ_CP022686 | 3,950,011 | T→G | 6.0% | H127P (CAC→CCC) | hemB ← | porphobilinogen synthase |
| RA | NZ_CP022686 | 3,977,611 | A→C | 7.4% | E73D (GAA→GAC) | phoR → | phosphate regulon sensor histidine kinase PhoR |
| RA | NZ_CP022686 | 3,977,656 | A→C | 7.9% | K88N (AAA→AAC) | phoR → | phosphate regulon sensor histidine kinase PhoR |
| RA | NZ_CP022686 | 3,981,933 | T→G | 13.1% | intergenic (+70/‑86) | proY → / → malZ | proline‑specific permease ProY/maltodextrin glucosidase |
| RA | NZ_CP022686 | 4,014,238 | C→G | 11.3% | intergenic (+84/‑260) | bolA → / → tig | transcriptional regulator BolA/trigger factor |
| RA | NZ_CP022686 | 4,056,962 | C→A | 23.2% | F137L (TTC→TTA) | adk → | adenylate kinase |
| RA | NZ_CP022686 | 4,056,975 | G→T | 12.5% | V142L (GTA→TTA) | adk → | adenylate kinase |
| RA | NZ_CP022686 | 4,079,332 | A→C | 8.1% | W169G (TGG→GGG) | ybbO ← | NADP(+)‑dependent aldehyde reductase |
| RA | NZ_CP022686 | 4,270,799 | A→C | 8.8% | T482P (ACG→CCG) | sucA → | 2‑oxoglutarate dehydrogenase E1 component |
| RA | NZ_CP022686 | 4,280,095 | T→G | 9.6% | G103G (GGT→GGG) | cydB → | cytochrome d ubiquinol oxidase subunit II |
| RA | NZ_CP022686 | 4,286,455 | T→G | 7.6% | V38G (GTC→GGC) | cpoB → | cell division protein CpoB |
| RA | NZ_CP022686 | 4,290,599 | T→G | 7.2% | T121P (ACC→CCC) | ybgS ← | YbgS‑like family protein |
| RA | NZ_CP022686 | 4,290,635 | T→G | 9.5% | T109P (ACC→CCC) | ybgS ← | YbgS‑like family protein |
| RA | NZ_CP022686 | 4,331,909 | G→T | 10.9% | S299Y (TCC→TAC) | ybhR ← | ABC transporter permease |
| RA | NZ_CP022686 | 4,368,341 | T→G | 15.5% | D47A (GAC→GCC) | ybiY ← | glycyl‑radical enzyme activating protein |
| RA | NZ_CP022686 | 4,445,534 | T→G | 8.8% | intergenic (+40/‑199) | serS → / → dmsA | serine‑‑tRNA ligase/dimethylsulfoxide reductase subunit A |
| RA | NZ_CP022686 | 4,632,182 | T→G | 6.4% | R276R (CGT→CGG) | mchF → | microcin export transporter peptidase/ATP‑binding subunit MchF |
| RA | NZ_CP022686 | 4,642,951 | A→C | 7.1% | N732T (AAC→ACC) | sfaF → | S/F1C fimbrial usher SfaF/FocD |
| RA | NZ_CP022686 | 4,764,904 | G→T | 12.6% | intergenic (‑84/‑177) | ycfT ← / → lolC | acyltransferase family protein/lipoprotein‑releasing ABC transporter permease subunit LolC |
| RA | NZ_CP022686 | 4,787,799 | C→A | 9.9% | intergenic (‑52/‑44) | CIW80_RS24075 ← / → CIW80_RS24080 | IS3‑like element ISEc52 family transposase/super‑infection exclusion protein B |
| RA | NZ_CP022686 | 4,815,886 | T→G | 11.8% | V25G (GTG→GGG) | CIW80_RS24305 → | C40 family peptidase |
| RA | NZ_CP022686 | 4,839,687 | T→G | 11.2% | N144T (AAC→ACC) | minD ← | septum site‑determining protein MinD |
| MC JC | NZ_CP022686 | 4,844,868 | Δ1,662 bp | 100% | [umuD]–[umuC] | [umuD], [umuC] | |
| 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 | 4,905,210 | T→G | 12.9% | G112G (GGT→GGG) | CIW80_RS24815 → | coenzyme F390 synthetase |
| RA | NZ_CP022686 | 4,951,538 | C→A | 19.6% | A44A (GCC→GCA) | topA → | type I DNA topoisomerase |
| RA | NZ_CP022686 | 4,951,545 | A→C | 13.6% | S47R (AGT→CGT) | topA → | type I DNA topoisomerase |
| RA | NZ_CP022686 | 5,042,304 | T→G | 13.4% | N645K (AAT→AAG) | CIW80_RS25525 → | EntS/YbdA MFS transporter |
| RA | NZ_CP022686 | 5,042,676 | C→T | 33.3% | S769S (AGC→AGT) | CIW80_RS25525 → | EntS/YbdA MFS transporter |
| RA | NZ_CP022686 | 5,043,648 | G→C | 6.0% | V1093V (GTG→GTC) | CIW80_RS25525 → | EntS/YbdA MFS transporter |
| RA | NZ_CP022686 | 5,044,614 | T→C | 6.2% | G1415G (GGT→GGC) | CIW80_RS25525 → | EntS/YbdA MFS transporter |
| RA | NZ_CP022686 | 5,044,641 | C→T | 6.0% | N1424N (AAC→AAT) | 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 | 3,591 | Δ25 bp | 80.5% | [ompA]–[IL2wt no signal] | [ompA], [IL2wt no signal] | |
| 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 | 667–2618 | 3050–2957 | 340–2384 | 4736 [4307] | [4395] 4603 | JNG15_RS00010–mobA | JNG15_RS00010,JNG15_RS00015,mobA |
| * | * | ÷ | pMut‑Ompa‑D5‑IL2wt‑His6 | 4746–4809 | 5478–5214 | 406–733 | 3538 [3433] | [0] NA | [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 | 262466 = | 1 (0.000) | 198 (0.910) | 73/250 | NT | 99.5% | coding (320/1647 nt) | fadK | medium‑chain fatty‑acid‑‑CoA ligase |
| ? | NZ_CP022686 | = 1524130 | NA (NA) | intergenic (+8/+232) | CIW80_RS07590/syd | IS3‑like element ISEc52 family transposase/SecY‑interacting protein | |||||
| * | ? | NZ_CP022686 | = 262468 | 1 (0.000) | 169 (0.780) | 70/250 | NT | 99.4% | coding (322/1647 nt) | fadK | medium‑chain fatty‑acid‑‑CoA ligase |
| ? | NZ_CP022686 | = 1761697 | NA (NA) | intergenic (‑72/‑70) | CIW80_RS08710/CIW80_RS08720 | IS3‑like element ISEc52 family transposase/IS3‑like element IS600 family transposase | |||||
| * | ? | NZ_CP022686 | = 3395245 | 224 (1.030) | 26 (0.020) +61 bp |
17/128 | NT | 30.7% | pseudogene (15/1107 nt) | yjhR | helicase YjhR |
| ? | pMut‑Ompa‑D5‑IL2wt‑His6 | = 3594 | 5 (0.000) | intergenic (+1/‑15) | ompA/IL2wt no signal | –/– | |||||
| * | ? | NZ_CP022686 | 4514374 = | 177 (0.820) | 7 (0.000) +AGCT |
7/242 | NT | 7.4% | coding (59/1053 nt) | ompA | porin OmpA |
| ? | pMut‑Ompa‑D5‑IL2wt‑His6 | 3609 = | 5 (0.000) | coding (1/399 nt) | IL2wt no signal | ||||||