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 | 182,646 | A→C | 12.6% | G68G (GGT→GGG) | malI ← | mal regulon transcriptional regulator MalI |
| RA | NZ_CP022686 | 349,106 | A→C | 10.3% | T607P (ACC→CCC) | yeaG → | protein kinase YeaG |
| RA | NZ_CP022686 | 360,227 | T→G | 16.5% | T35P (ACG→CCG) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| RA | NZ_CP022686 | 379,600 | T→G | 10.4% | intergenic (+35/‑20) | manZ → / → yobD | PTS mannose transporter subunit IID/DUF986 family protein |
| RA | NZ_CP022686 | 457,894 | Δ1 bp | 100% | pseudogene (288/997 nt) | CIW80_RS02445 ← | DUF968 domain‑containing protein |
| RA | NZ_CP022686 | 496,084 | T→A | 8.8% | L399F (TTA→TTT) | otsA ← | alpha,alpha‑trehalose‑phosphate synthase |
| RA | NZ_CP022686 | 512,735 | G→T | 23.8% | Q250K (CAA→AAA) | yecC ← | L‑cystine ABC transporter ATP‑binding protein YecC |
| 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 | 599,447 | A→C | 7.0% | D991A (GAC→GCC) | irp1 → | yersiniabactin polyketide synthase HMWP1 |
| RA | NZ_CP022686 | 601,295 | T→G | 19.6% | V1607G (GTC→GGC) | irp1 → | yersiniabactin polyketide synthase HMWP1 |
| RA | NZ_CP022686 | 601,302 | T→G | 17.8% | R1609R (CGT→CGG) | irp1 → | yersiniabactin polyketide synthase HMWP1 |
| MC JC | NZ_CP022686 | 628,478 | Δ1,286 bp | 100% | [clbP] | [clbP] | |
| RA | NZ_CP022686 | 694,438 | G→T | 11.4% | M1M (ATG→ATT) † | 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 | 15.1% | N41T (AAC→ACC) | wcaM ← | colanic acid biosynthesis protein WcaM |
| RA | NZ_CP022686 | 765,008 | A→T | 14.2% | I37I (ATT→ATA) | wcaM ← | colanic acid biosynthesis protein WcaM |
| RA | NZ_CP022686 | 765,014 | A→T | 11.9% | V35V (GTT→GTA) | wcaM ← | colanic acid biosynthesis protein WcaM |
| RA | NZ_CP022686 | 794,460 | C→T | 100% | A568V (GCG→GTG) | dgcE → | diguanylate cyclase |
| RA | NZ_CP022686 | 829,441 | C→A | 27.4% | intergenic (‑30/+197) | gatY ← / ← fbaB | tagatose‑bisphosphate aldolase subunit GatY/class I fructose‑bisphosphate aldolase |
| RA | NZ_CP022686 | 829,452 | G→T | 18.2% | intergenic (‑41/+186) | gatY ← / ← fbaB | tagatose‑bisphosphate aldolase subunit GatY/class I fructose‑bisphosphate aldolase |
| RA | NZ_CP022686 | 829,467 | C→A | 16.3% | intergenic (‑56/+171) | gatY ← / ← fbaB | tagatose‑bisphosphate aldolase subunit GatY/class I fructose‑bisphosphate aldolase |
| RA | NZ_CP022686 | 829,513 | C→A | 10.8% | intergenic (‑102/+125) | gatY ← / ← fbaB | tagatose‑bisphosphate aldolase subunit GatY/class I fructose‑bisphosphate aldolase |
| RA | NZ_CP022686 | 837,589 | A→T | 13.4% | intergenic (‑162/+61) | thiM ← / ← rcnR | hydroxyethylthiazole kinase/Ni(II)/Co(II)‑binding transcriptional repressor RcnR |
| RA | NZ_CP022686 | 837,606 | T→G | 7.8% | intergenic (‑179/+44) | thiM ← / ← rcnR | hydroxyethylthiazole kinase/Ni(II)/Co(II)‑binding transcriptional repressor RcnR |
| RA | NZ_CP022686 | 881,733 | A→C | 16.0% | intergenic (+248/+139) | yohP → / ← dusC | protein YohP/tRNA dihydrouridine(16) synthase DusC |
| RA | NZ_CP022686 | 881,760 | T→G | 16.1% | 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 | 948,023 | G→T | 14.6% | intergenic (+92/‑165) | CIW80_RS04855 → / → CIW80_RS04860 | terminase small subunit/hypothetical protein |
| RA | NZ_CP022686 | 948,046 | G→T | 14.3% | intergenic (+115/‑142) | CIW80_RS04855 → / → CIW80_RS04860 | terminase small subunit/hypothetical protein |
| RA | NZ_CP022686 | 957,112 | T→G | 15.0% | T89P (ACC→CCC) | ccmA ← | cytochrome c biogenesis heme‑transporting ATPase CcmA |
| RA | NZ_CP022686 | 973,372 | G→T | 7.6% | D232Y (GAT→TAT) | rcsD → | phosphotransferase RcsD |
| RA | NZ_CP022686 | 1,005,085 | C→A | 15.4% | T380T (ACC→ACA) | nrdA → | ribonucleoside‑diphosphate reductase subunit alpha |
| RA | NZ_CP022686 | 1,034,493 | T→G | 8.4% | T26P (ACC→CCC) | menC ← | o‑succinylbenzoate synthase |
| RA | NZ_CP022686 | 1,047,897 | T→G | 6.4% | intergenic (‑127/+37) | nuoM ← / ← nuoL | NADH‑quinone oxidoreductase subunit M/NADH‑quinone oxidoreductase subunit L |
| RA | NZ_CP022686 | 1,100,944 | T→G | 10.8% | D187A (GAC→GCC) | aroC ← | chorismate synthase |
| RA | NZ_CP022686 | 1,174,272 | A→C | 16.4% | intergenic (+1/‑43) | CIW80_RS05855 → / → CIW80_RS05860 | tRNA‑Val/tRNA‑Val |
| RA | NZ_CP022686 | 1,174,307 | T→A | 10.2% | intergenic (+36/‑8) | CIW80_RS05855 → / → CIW80_RS05860 | tRNA‑Val/tRNA‑Val |
| RA | NZ_CP022686 | 1,174,416 | A→T | 9.8% | intergenic (+26/‑21) | CIW80_RS05860 → / → CIW80_RS05865 | tRNA‑Val/tRNA‑Val |
| RA | NZ_CP022686 | 1,195,307 | C→G | 8.1% | G129A (GGC→GCC) | cysP ← | thiosulfate/sulfate ABC transporter substrate‑binding protein CysP |
| RA | NZ_CP022686 | 1,209,908 | T→G | 17.4% | D396A (GAC→GCC) | eutH ← | ethanolamine utilization protein EutH |
| RA | NZ_CP022686 | 1,237,928 | G→C | 12.6% | L300V (CTG→GTG) | tmcA ← | tRNA cytosine(34) acetyltransferase TmcA |
| RA | NZ_CP022686 | 1,360,709 | T→G | 11.5% | intergenic (‑44/+280) | kgtP ← / ← rrf | alpha‑ketoglutarate permease/5S ribosomal RNA |
| RA | NZ_CP022686 | 1,360,724 | G→T | 9.9% | intergenic (‑59/+265) | kgtP ← / ← rrf | alpha‑ketoglutarate permease/5S ribosomal RNA |
| RA | NZ_CP022686 | 1,360,729 | G→T | 9.5% | intergenic (‑64/+260) | kgtP ← / ← rrf | alpha‑ketoglutarate permease/5S ribosomal RNA |
| RA | NZ_CP022686 | 1,360,750 | G→T | 10.2% | intergenic (‑85/+239) | kgtP ← / ← rrf | alpha‑ketoglutarate permease/5S ribosomal RNA |
| RA | NZ_CP022686 | 1,370,559 | T→G | 7.9% | K98N (AAA→AAC) | rluD ← | 23S rRNA pseudouridine(1911/1915/1917) synthase RluD |
| RA | NZ_CP022686 | 1,441,772 | A→C | 11.0% | R596R (CGT→CGG) | hypF ← | carbamoyltransferase HypF |
| RA | NZ_CP022686 | 1,479,607 | A→C | 11.5% | intergenic (‑16/+177) | ftsB ← / ← ygbE | cell division protein FtsB/DUF3561 family protein |
| RA | NZ_CP022686 | 1,479,634 | G→C | 12.5% | intergenic (‑43/+150) | ftsB ← / ← ygbE | cell division protein FtsB/DUF3561 family protein |
| RA | NZ_CP022686 | 1,504,257 | A→T | 11.5% | S232C (AGT→TGT) | CIW80_RS07520 → | YgcG family protein |
| RA | NZ_CP022686 | 1,504,355 | T→A | 14.1% | A264A (GCT→GCA) | CIW80_RS07520 → | YgcG family protein |
| RA | NZ_CP022686 | 1,504,361 | G→T | 22.9% | V266V (GTG→GTT) | CIW80_RS07520 → | YgcG family protein |
| RA | NZ_CP022686 | 1,547,000 | G→C | 8.2% | intergenic (+22/‑12) | CIW80_RS07705 → / → CIW80_RS07710 | tRNA‑Met/tRNA‑Met |
| RA | NZ_CP022686 | 1,558,395 | A→C | 16.5% | K464N (AAA→AAC) | vgrG → | type VI secretion system Vgr family protein |
| RA | NZ_CP022686 | 1,564,543 | A→C | 8.6% | S182R (AGC→CGC) | CIW80_RS07780 → | ImcF‑related family protein |
| RA | NZ_CP022686 | 1,566,203 | A→C | 12.7% | N735T (AAC→ACC) | CIW80_RS07780 → | ImcF‑related family protein |
| RA | NZ_CP022686 | 1,572,185 | A→C | 9.2% | S143R (AGC→CGC) | tssJ → | type VI secretion system lipoprotein TssJ |
| RA | NZ_CP022686 | 1,632,501 | T→G | 11.5% | V166G (GTT→GGT) | arcC → | carbamate kinase |
| RA | NZ_CP022686 | 1,640,925 | A→C | 11.5% | R7S (AGA→AGC) | ygfM → | molybdopterin‑dependent oxidoreductase FAD‑binding subunit |
| RA | NZ_CP022686 | 1,674,224 | T→G | 16.1% | K188N (AAA→AAC) | ygfB ← | UPF0149 family protein YgfB |
| RA | NZ_CP022686 | 1,674,231 | A→T | 7.3% | V186E (GTA→GAA) | ygfB ← | UPF0149 family protein YgfB |
| RA | NZ_CP022686 | 1,674,239 | C→G | 8.3% | A183A (GCG→GCC) | ygfB ← | UPF0149 family protein YgfB |
| RA | NZ_CP022686 | 1,674,244 | T→G | 11.8% | 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 | 1,705,974 | T→G | 14.9% | intergenic (‑584/‑71) | yqgB ← / → metK | acid stress response protein YqgB/methionine adenosyltransferase |
| RA | NZ_CP022686 | 1,828,113 | A→C | 7.4% | P84P (CCT→CCG) | gspK ← | type II secretion system minor pseudopilin GspK |
| RA | NZ_CP022686 | 1,833,745 | T→G | 20.5% | N468H (AAC→CAC) | gspD ← | type II secretion system secretin GspD |
| RA | NZ_CP022686 | 1,833,756 | T→G | 14.2% | Q464P (CAG→CCG) | gspD ← | type II secretion system secretin GspD |
| RA | NZ_CP022686 | 1,860,070 | C→A | 20.2% | E119* (GAA→TAA) | CIW80_RS09255 ← | YtfJ family protein |
| RA | NZ_CP022686 | 2,027,390 | A→C | 8.3% | K80N (AAA→AAC) | agaE → | PTS N‑acetylgalactosamine transporter subunit IID |
| RA | NZ_CP022686 | 2,037,521 | A→C | 13.3% | T508P (ACC→CCC) | lpoA → | penicillin‑binding protein activator LpoA |
| RA | NZ_CP022686 | 2,047,984 | A→C | 6.2% | R624R (CGT→CGG) | deaD ← | ATP‑dependent RNA helicase DeaD |
| RA | NZ_CP022686 | 2,049,094 | G→T | 9.3% | T254T (ACC→ACA) | deaD ← | ATP‑dependent RNA helicase DeaD |
| RA | NZ_CP022686 | 2,061,780 | A→C | 7.3% | K383N (AAA→AAC) | argG → | argininosuccinate synthase |
| RA | NZ_CP022686 | 2,110,465 | T→G | 10.8% | T10P (ACC→CCC) | rplM ← | 50S ribosomal protein L13 |
| RA | NZ_CP022686 | 2,123,241 | A→C | 12.9% | F208V (TTT→GTT) | tldD ← | metalloprotease TldD |
| RA | NZ_CP022686 | 2,130,829 | A→C | 11.8% | V237G (GTT→GGT) | mreC ← | rod shape‑determining protein MreC |
| RA | NZ_CP022686 | 2,148,115 | T→G | 16.6% | L126R (CTG→CGG) | panF → | sodium/pantothenate symporter |
| RA | NZ_CP022686 | 2,148,132 | C→G | 18.2% | L132V (CTG→GTG) | panF → | sodium/pantothenate symporter |
| RA | NZ_CP022686 | 2,148,136 | T→G | 11.3% | V133G (GTT→GGT) | panF → | sodium/pantothenate symporter |
| RA | NZ_CP022686 | 2,158,674 | T→G | 8.0% | A51A (GCT→GCG) | CIW80_RS10770 → | membrane protein |
| RA | NZ_CP022686 | 2,163,522 | C→A | 7.8% | intergenic (‑17/+23) | rrf ← / ← CIW80_RS10805 | 5S ribosomal RNA/tRNA‑Thr |
| RA | NZ_CP022686 | 2,172,177 | A→C | 8.6% | G87G (GGT→GGG) | smg ← | DUF494 family protein Smg |
| RA | NZ_CP022686 | 2,179,916 | G→T | 6.0% | R22R (CGC→CGA) | rplQ ← | 50S ribosomal protein L17 |
| RA | NZ_CP022686 | 2,188,239 | G→T | 7.5% | intergenic (‑108/+57) | rplN ← / ← rpsQ | 50S ribosomal protein L14/30S ribosomal protein S17 |
| RA | NZ_CP022686 | 2,207,089 | C→A | 7.6% | intergenic (‑113/+56) | 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 | 2,221,550 | G→T | 10.5% | E90* (GAA→TAA) | yheS → | ABC transporter ATP‑binding protein |
| RA | NZ_CP022686 | 2,250,423 | T→A | 6.2% | Y50F (TAT→TTT) | dam ← | adenine‑specific DNA‑methyltransferase |
| RA | NZ_CP022686 | 2,320,775 | C→T | 100% | G274S (GGC→AGC) | CIW80_RS11675 ← | DNA‑processing protein DprA |
| RA | NZ_CP022686 | 2,380,936 | A→C | 7.5% | K186N (AAA→AAC) | pitA → | inorganic phosphate transporter PitA |
| RA | NZ_CP022686 | 2,386,496 | T→G | 10.5% | K417N (AAA→AAC) | prlC ← | oligopeptidase A |
| RA | NZ_CP022686 | 2,394,287 | T→G | 21.5% | N115T (AAC→ACC) | chuS ← | hematinate‑forming heme oxygenase ChuS |
| RA | NZ_CP022686 | 2,394,295 | G→T | 7.9% | I112I (ATC→ATA) | chuS ← | hematinate‑forming heme oxygenase ChuS |
| RA | NZ_CP022686 | 2,394,312 | C→G | 8.0% | A107P (GCC→CCC) | chuS ← | hematinate‑forming heme oxygenase ChuS |
| RA | NZ_CP022686 | 2,398,885 | A→C | 8.8% | S203R (AGC→CGC) | hutW → | heme anaerobic degradation radical SAM methyltransferase ChuW/HutW |
| RA | NZ_CP022686 | 2,408,861 | Δ1 bp | 100% | pseudogene (1097/3115 nt) | mdtF → | multidrug efflux pump RND permease MdtF |
| RA | NZ_CP022686 | 2,460,526 | A→C | 10.3% | V18G (GTG→GGG) | yhjY ← | autotransporter outer membrane beta‑barrel domain‑containing protein |
| RA | NZ_CP022686 | 2,460,581 | A→C | 28.9% | intergenic (‑3/‑155) | yhjY ← / → tag | autotransporter outer membrane beta‑barrel domain‑containing protein/DNA‑3‑methyladenine glycosylase I |
| RA | NZ_CP022686 | 2,516,873 | A→C | 9.9% | K761N (AAA→AAC) | upaG → | trimeric autotransporter adhesin UpaG |
| RA | NZ_CP022686 | 2,521,024 | T→G | 5.3% | V229G (GTT→GGT) | lldP → | L‑lactate permease |
| RA | NZ_CP022686 | 2,574,429 | T→G | 15.5% | 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 | 2,638,855 | C→A | 6.5% | intergenic (‑170/+70) | yidB ← / ← gyrB | YidB family protein/DNA topoisomerase (ATP‑hydrolyzing) subunit B |
| RA | NZ_CP022686 | 2,643,746 | A→C | 8.8% | S402A (TCG→GCG) | dnaA ← | chromosomal replication initiator protein DnaA |
| RA | NZ_CP022686 | 2,717,385 | T→G | 8.8% | F96V (TTT→GTT) | ilvA → | threonine ammonia‑lyase, biosynthetic |
| RA | NZ_CP022686 | 2,736,578 | C→A | 9.7% | T180T (ACC→ACA) | rffA → | dTDP‑4‑amino‑4,6‑dideoxygalactose transaminase |
| RA | NZ_CP022686 | 2,736,585 | T→A | 9.1% | Y183N (TAC→AAC) ‡ | rffA → | dTDP‑4‑amino‑4,6‑dideoxygalactose transaminase |
| RA | NZ_CP022686 | 2,736,586 | A→C | 11.3% | Y183S (TAC→TCC) ‡ | rffA → | dTDP‑4‑amino‑4,6‑dideoxygalactose transaminase |
| RA | NZ_CP022686 | 2,743,563 | T→G | 13.9% | noncoding (65/87 nt) | CIW80_RS13750 → | tRNA‑Leu |
| RA | NZ_CP022686 | 2,758,128 | A→C | 7.5% | K40N (AAA→AAC) | yifL → | lipoprotein |
| RA | NZ_CP022686 | 2,758,153 | A→C | 9.3% | T49P (ACG→CCG) | yifL → | lipoprotein |
| RA | NZ_CP022686 | 2,761,551 | C→G | 11.9% | L28V (CTG→GTG) | uvrD → | DNA helicase II |
| RA | NZ_CP022686 | 2,769,166 | C→A | 10.2% | C57F (TGC→TTC) | rarD ← | EamA family transporter RarD |
| RA | NZ_CP022686 | 2,769,196 | A→C | 16.9% | F47C (TTT→TGT) | rarD ← | EamA family transporter RarD |
| RA | NZ_CP022686 | 2,868,740 | T→G | 17.9% | Q22P (CAG→CCG) | fdoH ← | formate dehydrogenase O subunit beta |
| RA | NZ_CP022686 | 2,868,745 | C→G | 6.0% | A20A (GCG→GCC) | fdoH ← | formate dehydrogenase O subunit beta |
| RA | NZ_CP022686 | 2,868,753 | T→G | 10.1% | T18P (ACC→CCC) | fdoH ← | formate dehydrogenase O subunit beta |
| RA | NZ_CP022686 | 2,871,422 | T→G | 12.4% | N149T (AAC→ACC) | fdnG ← | formate dehydrogenase‑N subunit alpha |
| RA | NZ_CP022686 | 2,904,852 | T→G | 6.9% | T239P (ACG→CCG) | ftsN ← | cell division protein FtsN |
| RA | NZ_CP022686 | 2,920,385 | C→A | 7.2% | A54E (GCA→GAA) | CIW80_RS14610 → | bifunctional UDP‑sugar hydrolase/5'‑nucleotidase |
| RA | NZ_CP022686 | 2,920,428 | A→C | 8.4% | K68N (AAA→AAC) | CIW80_RS14610 → | bifunctional UDP‑sugar hydrolase/5'‑nucleotidase |
| RA | NZ_CP022686 | 2,933,234 | A→C | 9.8% | E22A (GAG→GCG) | frwB → | PTS fructose‑like transporter subunit IIB |
| RA | NZ_CP022686 | 2,981,597 | G→T | 13.9% | E562* (GAA→TAA) | rpoC → | DNA‑directed RNA polymerase subunit beta' |
| RA | NZ_CP022686 | 2,994,693 | T→G | 10.3% | W162G (TGG→GGG) | yjaH → | DUF1481 domain‑containing protein |
| RA | NZ_CP022686 | 3,013,752 | T→G | 7.8% | V471G (GTG→GGG) | aceK → | bifunctional isocitrate dehydrogenase kinase/phosphatase |
| RA | NZ_CP022686 | 3,017,625 | G→C | 6.3% | A840A (GCG→GCC) | metH → | methionine synthase |
| RA | NZ_CP022686 | 3,020,229 | T→G | 11.3% | V133G (GTC→GGC) | yjbB → | Na/Pi cotransporter family protein |
| RA | NZ_CP022686 | 3,114,653 | A→C | 8.2% | V36G (GTC→GGC) | CIW80_RS15500 ← | ABC transporter ATP‑binding protein |
| RA | NZ_CP022686 | 3,120,532 | T→G | 5.4% | Y98S (TAC→TCC) | fdhF ← | formate dehydrogenase H subunit alpha, selenocysteine‑containing |
| RA | NZ_CP022686 | 3,163,945 | A→C | 5.5% | T397P (ACG→CCG) | melA → | alpha‑galactosidase |
| RA | NZ_CP022686 | 3,184,651 | A→C | 5.8% | 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 | 3,252,190 | T→G | 10.7% | K221N (AAA→AAC) | CIW80_RS16225 ← | enoyl‑CoA hydratase/isomerase family protein |
| RA | NZ_CP022686 | 3,280,865 | T→G | 5.7% | G28G (GGT→GGG) | yjfF → | sugar ABC transporter permease YjfF |
| RA | NZ_CP022686 | 3,348,359 | A→T | 7.8% | intergenic (‑175/‑25) | CIW80_RS16685 ← / → CIW80_RS26495 | inovirus Gp2 family protein/hypothetical protein |
| RA | NZ_CP022686 | 3,363,082 | G→T | 6.5% | 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 | 3,390,614 | G→T | 8.0% | A143A (GCC→GCA) | sgcX ← | M42 family metallopeptidase |
| RA | NZ_CP022686 | 3,390,671 | T→G | 8.9% | K124N (AAA→AAC) | sgcX ← | M42 family metallopeptidase |
| RA | NZ_CP022686 | 3,424,795 | A→C | 100% | intergenic (‑41/+27) | yjiJ ← / ← yjiK | MFS transporter/YjiK family protein |
| RA | NZ_CP022686 | 3,461,223 | G→T | 13.0% | intergenic (‑32/+3) | CIW80_RS17335 ← / ← CIW80_RS17340 | tRNA‑Leu/tRNA‑Leu |
| RA | NZ_CP022686 | 3,461,229 | T→G | 24.2% | noncoding (84/87 nt) | CIW80_RS17340 ← | tRNA‑Leu |
| RA | NZ_CP022686 | 3,504,054 | T→G | 9.5% | V204G (GTT→GGT) | tal → | transaldolase |
| RA | NZ_CP022686 | 3,516,093 | T→G | 9.3% | V219G (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 | 3,604,564 | G→T | 18.9% | intergenic (+80/‑151) | lpxC → / → secM | UDP‑3‑O‑acyl‑N‑acetylglucosamine deacetylase/secA translation cis‑regulator SecM |
| RA | NZ_CP022686 | 3,625,683 | T→G | 10.8% | A150A (GCT→GCG) | aceE → | pyruvate dehydrogenase (acetyl‑transferring), homodimeric type |
| RA | NZ_CP022686 | 3,652,079 | T→G | 8.7% | intergenic (‑88/+24) | panB ← / ← CIW80_RS18255 | 3‑methyl‑2‑oxobutanoate hydroxymethyltransferase/fimbrial‑like adhesin |
| RA | NZ_CP022686 | 3,656,188 | A→G | 100% | S549P (TCC→CCC) | htrE ← | outer membrane usher protein |
| RA | NZ_CP022686 | 3,661,336 | G→T | 28.1% | R70S (CGC→AGC) | pcnB ← | polynucleotide adenylyltransferase PcnB |
| RA | NZ_CP022686 | 3,661,518 | C→A | 10.3% | C9F (TGC→TTC) | pcnB ← | polynucleotide adenylyltransferase PcnB |
| RA | NZ_CP022686 | 3,725,999 | G→T | 8.3% | intergenic (+21/‑345) | gmhB → / → CIW80_RS18595 | D‑glycero‑beta‑D‑manno‑heptose 1,7‑bisphosphate 7‑phosphatase/16S ribosomal RNA |
| RA | NZ_CP022686 | 3,734,367 | T→G | 22.8% | F225V (TTT→GTT) | yafD → | endonuclease/exonuclease/phosphatase family protein |
| RA | NZ_CP022686 | 3,734,370 | G→T | 10.4% | G226C (GGC→TGC) | yafD → | endonuclease/exonuclease/phosphatase family protein |
| RA | NZ_CP022686 | 3,739,795 | T→G | 5.7% | noncoding (70/77 nt) | CIW80_RS18670 → | tRNA‑Asp |
| RA | NZ_CP022686 | 3,758,887 | C→A | 8.1% | K205N (AAG→AAT) | CIW80_RS18810 ← | hypothetical protein |
| RA | NZ_CP022686 | 3,792,805 | A→G | 100% | Y421C (TAC→TGC) | fucP → | L‑fucose:H+ symporter permease |
| RA | NZ_CP022686 | 3,797,481 | T→G | 18.8% | L130V (TTA→GTA) | CIW80_RS19065 → | LacI family DNA‑binding transcriptional regulator |
| RA | NZ_CP022686 | 3,806,256 | G→T | 13.9% | 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 | 10.1% | T383P (ACG→CCG) | ecpC ← | fimbrial usher EcpC |
| RA | NZ_CP022686 | 3,885,457 | A→C | 9.4% | N1404T (AAC→ACC) | fdeC → | inverse autotransporter adhesin FdeC |
| RA | NZ_CP022686 | 3,910,585 | T→G | 10.7% | S156R (AGC→CGC) | yahC ← | DUF1097 domain‑containing protein |
| RA | NZ_CP022686 | 3,928,345 | T→G | 11.9% | F277V (TTC→GTC) | prpE → | propionate‑‑CoA ligase |
| RA | NZ_CP022686 | 3,928,369 | T→G | 10.5% | W285G (TGG→GGG) | prpE → | propionate‑‑CoA ligase |
| RA | NZ_CP022686 | 3,932,456 | A→C | 9.8% | C179W (TGT→TGG) | lacA ← | galactoside O‑acetyltransferase |
| RA | NZ_CP022686 | 3,935,324 | T→G | 14.2% | N705T (AAC→ACC) | lacZ ← | beta‑galactosidase |
| RA | NZ_CP022686 | 3,949,969 | T→G | 9.1% | D141A (GAC→GCC) | hemB ← | porphobilinogen synthase |
| RA | NZ_CP022686 | 3,975,416 | A→C | 5.8% | R347R (CGT→CGG) | sbcD ← | exonuclease subunit SbcD |
| RA | NZ_CP022686 | 3,981,933 | T→G | 13.8% | intergenic (+70/‑86) | proY → / → malZ | proline‑specific permease ProY/maltodextrin glucosidase |
| RA | NZ_CP022686 | 4,014,238 | C→G | 10.1% | intergenic (+84/‑260) | bolA → / → tig | transcriptional regulator BolA/trigger factor |
| RA | NZ_CP022686 | 4,014,291 | G→T | 14.6% | intergenic (+137/‑207) | bolA → / → tig | transcriptional regulator BolA/trigger factor |
| RA | NZ_CP022686 | 4,079,363 | A→C | 13.0% | A158A (GCT→GCG) | ybbO ← | NADP(+)‑dependent aldehyde reductase |
| RA | NZ_CP022686 | 4,146,385 | A→C | 6.4% | P266P (CCT→CCG) | fepC ← | iron‑enterobactin ABC transporter ATP‑binding protein |
| RA | NZ_CP022686 | 4,214,439 | G→C | 5.6% | intergenic (‑12/+23) | CIW80_RS21095 ← / ← CIW80_RS21100 | tRNA‑Gln/tRNA‑Gln |
| RA | NZ_CP022686 | 4,290,635 | T→G | 8.7% | T109P (ACC→CCC) | ybgS ← | YbgS‑like family protein |
| RA | NZ_CP022686 | 4,301,920 | T→G | 7.8% | V136G (GTT→GGT) | modB → | molybdate ABC transporter permease subunit |
| RA | NZ_CP022686 | 4,368,341 | T→G | 10.0% | D47A (GAC→GCC) | ybiY ← | glycyl‑radical enzyme activating protein |
| RA | NZ_CP022686 | 4,368,380 | T→G | 12.6% | N34T (AAC→ACC) | ybiY ← | glycyl‑radical enzyme activating protein |
| RA | NZ_CP022686 | 4,440,334 | A→C | 12.9% | Q797H (CAA→CAC) | ftsK → | DNA translocase FtsK |
| RA | NZ_CP022686 | 4,535,247 | A→C | 7.0% | Q84H (CAA→CAC) | appA → | bifunctional acid phosphatase/4‑phytase |
| RA | NZ_CP022686 | 4,535,349 | A→C | 11.6% | T118T (ACA→ACC) | appA → | bifunctional acid phosphatase/4‑phytase |
| RA | NZ_CP022686 | 4,552,602 | C→G | 10.5% | E441D (GAG→GAC) | rutG ← | pyrimidine utilization transport protein G |
| RA | NZ_CP022686 | 4,571,417 | T→G | 8.8% | A66A (GCA→GCC) | pgaC ← | poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine synthase |
| RA | NZ_CP022686 | 4,571,459 | G→T | 11.0% | F52L (TTC→TTA) | pgaC ← | poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine synthase |
| RA | NZ_CP022686 | 4,632,182 | T→G | 12.5% | R276R (CGT→CGG) | mchF → | microcin export transporter peptidase/ATP‑binding subunit MchF |
| RA | NZ_CP022686 | 4,632,186 | G→T | 8.2% | G278C (GGC→TGC) | mchF → | microcin export transporter peptidase/ATP‑binding subunit MchF |
| RA | NZ_CP022686 | 4,642,951 | A→C | 12.8% | N732T (AAC→ACC) | sfaF → | S/F1C fimbrial usher SfaF/FocD |
| RA | NZ_CP022686 | 4,764,877 | T→G | 10.1% | intergenic (‑57/‑204) | ycfT ← / → lolC | acyltransferase family protein/lipoprotein‑releasing ABC transporter permease subunit LolC |
| RA | NZ_CP022686 | 4,764,880 | T→G | 10.3% | intergenic (‑60/‑201) | ycfT ← / → lolC | acyltransferase family protein/lipoprotein‑releasing ABC transporter permease subunit LolC |
| RA | NZ_CP022686 | 4,780,176 | A→C | 19.3% | intergenic (‑75/+95) | phoP ← / ← purB | two‑component system response regulator PhoP/adenylosuccinate lyase |
| RA | NZ_CP022686 | 4,783,334 | A→C | 13.0% | V32G (GTC→GGC) | mnmA ← | tRNA 2‑thiouridine(34) synthase MnmA |
| RA | NZ_CP022686 | 4,783,343 | C→A | 10.1% | G29V (GGA→GTA) | mnmA ← | tRNA 2‑thiouridine(34) synthase MnmA |
| RA | NZ_CP022686 | 4,815,879 | T→G | 9.0% | F23V (TTC→GTC) | CIW80_RS24305 → | C40 family peptidase |
| RA | NZ_CP022686 | 4,826,160 | T→G | 5.5% | K250N (AAA→AAC) | sitA ← | iron/manganese ABC transporter substrate‑binding protein SitA |
| RA | NZ_CP022686 | 4,839,687 | T→G | 12.6% | 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 | 4,943,295 | T→G | 8.1% | K5N (AAA→AAC) | trpE ← | anthranilate synthase component I |
| RA | NZ_CP022686 | 4,951,498 | T→G | 11.1% | V31G (GTC→GGC) | topA → | type I DNA topoisomerase |
| RA | NZ_CP022686 | 4,951,531 | C→A | 10.8% | S42* (TCA→TAA) | topA → | type I DNA topoisomerase |
| RA | NZ_CP022686 | 4,951,545 | A→C | 15.1% | S47R (AGT→CGT) | topA → | type I DNA topoisomerase |
| RA | NZ_CP022686 | 4,952,020 | T→G | 7.0% | V205G (GTC→GGC) | topA → | type I DNA topoisomerase |
| RA | NZ_CP022686 | 5,001,164 | A→C | 10.4% | N163T (AAC→ACC) | ompG → | monomeric porin OmpG |
| RA | NZ_CP022686 | 5,041,191 | G→A | 5.9% | A274A (GCG→GCA) | CIW80_RS25525 → | EntS/YbdA MFS transporter |
| RA | NZ_CP022686 | 5,044,182 | T→A | 6.6% | G1271G (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] | |
| RA | pMut‑Ompa‑D5‑IL2wt‑His6 | 3,645 | C→T | 27.1% | Q13* (CAG→TAG) | IL2wt no signal → | |
| RA | pMut‑Ompa‑D5‑IL2wt‑His6 | 4,806:1 | +A | 100% | intergenic (‑171/+403) | annotated as hok_sok locus ← / ← putative HTH domain protein | –/– |
| RA | pMut‑Ompa‑D5‑IL2wt‑His6 | 4,868 | Δ1 bp | 100% | intergenic (‑233/+341) | annotated as hok_sok locus ← / ← putative HTH domain protein | –/– |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NZ_MW240712 | 807–2618 | 2975–2957 | 340–2169 | 886 [781] | [751] 982 | JNG15_RS00010–[mobA] | JNG15_RS00010,JNG15_RS00015,[mobA] |
| * | * | ÷ | pMut‑Ompa‑D5‑IL2wt‑His6 | 4942–5066 | 5478–5075 | 10–537 | 3971 [3474] | [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 = | 2 (0.010) | 231 (1.170) | 74/250 | NT | 99.1% | 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 | 2 (0.010) | 165 (0.840) | 54/250 | NT | 98.8% | 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 | 1522881 = | NA (NA) | 4 (0.000) | 4/250 | NT | 40.0% | intergenic (‑394/‑72) | yqcC/CIW80_RS07590 | YqcC family protein/IS3‑like element ISEc52 family transposase |
| ? | pMut‑Ompa‑D5‑IL2wt‑His6 | 3610 = | 6 (0.000) | coding (2/399 nt) | IL2wt no signal | ||||||
| * | ? | NZ_CP022686 | = 1524130 | NA (NA) | 17 (0.010) +24 bp |
12/202 | NT | 77.8% | intergenic (+8/+232) | CIW80_RS07590/syd | IS3‑like element ISEc52 family transposase/SecY‑interacting protein |
| ? | pMut‑Ompa‑D5‑IL2wt‑His6 | = 3594 | 6 (0.000) | intergenic (+1/‑15) | ompA/IL2wt no signal | –/– | |||||
| * | ? | NZ_CP022686 | = 1524131 | NA (NA) | 9 (0.000) +GGG |
8/244 | NT | 60.6% | intergenic (+9/+231) | CIW80_RS07590/syd | IS3‑like element ISEc52 family transposase/SecY‑interacting protein |
| ? | pMut‑Ompa‑D5‑IL2wt‑His6 | = 3594 | 6 (0.000) | intergenic (+1/‑15) | ompA/IL2wt no signal | –/– | |||||
| * | ? | NZ_CP022686 | 4514374 = | 197 (1.000) | 8 (0.000) +AGCT |
6/242 | NT | 7.5% | coding (59/1053 nt) | ompA | porin OmpA |
| ? | pMut‑Ompa‑D5‑IL2wt‑His6 | 3609 = | 6 (0.000) | coding (1/399 nt) | IL2wt no signal | ||||||