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 | 182,638 | A→C | 7.6% | V71G (GTC→GGC) | malI ← | mal regulon transcriptional regulator MalI |
| RA | NZ_CP022686 | 235,765 | A→G | 5.2% | Q260R (CAG→CGG) | pykF → | pyruvate kinase PykF |
| RA | NZ_CP022686 | 355,148 | T→G | 9.7% | G139G (GGT→GGG) D270A (GAC→GCC) |
yeaL → nimR ← |
DUF441 domain‑containing protein DNA‑binding transcriptional regulator NimR |
| RA | NZ_CP022686 | 360,227 | T→G | 22.6% | T35P (ACG→CCG) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| RA | NZ_CP022686 | 360,290 | T→G | 12.4% | T14P (ACG→CCG) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| RA | NZ_CP022686 | 377,274 | A→C | 14.5% | K136N (AAA→AAC) | manX → | PTS mannose transporter subunit IIAB |
| RA | NZ_CP022686 | 457,894 | Δ1 bp | 100% | pseudogene (288/997 nt) | CIW80_RS02445 ← | DUF968 domain‑containing protein |
| RA | NZ_CP022686 | 524,842 | T→G | 9.1% | V203G (GTC→GGC) | yedE → | selenium metabolism membrane protein YedE/FdhT |
| RA | NZ_CP022686 | 556,942 | G→T | 16.2% | intergenic (+126/‑722) | 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 | 16.6% | V1607G (GTC→GGC) | irp1 → | yersiniabactin polyketide synthase HMWP1 |
| RA | NZ_CP022686 | 601,302 | T→G | 23.1% | R1609R (CGT→CGG) | irp1 → | yersiniabactin polyketide synthase HMWP1 |
| RA | NZ_CP022686 | 601,337 | T→G | 11.4% | V1621G (GTT→GGT) | irp1 → | yersiniabactin polyketide synthase HMWP1 |
| MC JC | NZ_CP022686 | 628,478 | Δ1,286 bp | 100% | [clbP] | [clbP] | |
| RA | NZ_CP022686 | 651,848 | A→C | 13.5% | R238R (CGT→CGG) | clbJ ← | colibactin non‑ribosomal peptide synthetase ClbJ |
| RA | NZ_CP022686 | 694,402 | G→T | 10.0% | intergenic (+162/‑34) | CIW80_RS03555 → / → CIW80_RS03560 | transposase/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 | 13.2% | N41T (AAC→ACC) | wcaM ← | colanic acid biosynthesis protein WcaM |
| RA | NZ_CP022686 | 794,460 | C→T | 100% | A568V (GCG→GTG) | dgcE → | diguanylate cyclase |
| RA | NZ_CP022686 | 829,452 | G→T | 19.7% | intergenic (‑41/+186) | gatY ← / ← fbaB | tagatose‑bisphosphate aldolase subunit GatY/class I fructose‑bisphosphate aldolase |
| RA | NZ_CP022686 | 829,472 | G→T | 11.5% | intergenic (‑61/+166) | gatY ← / ← fbaB | tagatose‑bisphosphate aldolase subunit GatY/class I fructose‑bisphosphate aldolase |
| RA | NZ_CP022686 | 837,561 | G→T | 15.9% | intergenic (‑134/+89) | thiM ← / ← rcnR | hydroxyethylthiazole kinase/Ni(II)/Co(II)‑binding transcriptional repressor RcnR |
| RA | NZ_CP022686 | 878,938 | T→G | 7.7% | pseudogene (752/762 nt) | yohF ← | SDR family oxidoreductase |
| RA | NZ_CP022686 | 881,733 | A→C | 16.6% | intergenic (+248/+139) | 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 | 948,046 | G→T | 9.9% | intergenic (+115/‑142) | CIW80_RS04855 → / → CIW80_RS04860 | terminase small subunit/hypothetical protein |
| RA | NZ_CP022686 | 948,049 | A→T | 12.5% | intergenic (+118/‑139) | CIW80_RS04855 → / → CIW80_RS04860 | terminase small subunit/hypothetical protein |
| RA | NZ_CP022686 | 948,090 | C→A | 12.5% | intergenic (+159/‑98) | CIW80_RS04855 → / → CIW80_RS04860 | terminase small subunit/hypothetical protein |
| RA | NZ_CP022686 | 957,112 | T→G | 14.3% | T89P (ACC→CCC) | ccmA ← | cytochrome c biogenesis heme‑transporting ATPase CcmA |
| RA | NZ_CP022686 | 1,005,073 | A→C | 6.5% | E376D (GAA→GAC) | nrdA → | ribonucleoside‑diphosphate reductase subunit alpha |
| RA | NZ_CP022686 | 1,005,085 | C→A | 15.3% | T380T (ACC→ACA) | nrdA → | ribonucleoside‑diphosphate reductase subunit alpha |
| RA | NZ_CP022686 | 1,005,098 | G→C | 7.3% | D385H (GAC→CAC) | nrdA → | ribonucleoside‑diphosphate reductase subunit alpha |
| RA | NZ_CP022686 | 1,040,909 | A→C | 9.0% | E232D (GAA→GAC) | rbn → | ribonuclease BN |
| RA | NZ_CP022686 | 1,065,997 | A→C | 10.1% | A30A (GCT→GCG) | yfbS ← | SLC13 family permease |
| RA | NZ_CP022686 | 1,100,944 | T→G | 13.4% | D187A (GAC→GCC) | aroC ← | chorismate synthase |
| RA | NZ_CP022686 | 1,174,272 | A→C | 11.6% | intergenic (+1/‑43) | CIW80_RS05855 → / → CIW80_RS05860 | tRNA‑Val/tRNA‑Val |
| RA | NZ_CP022686 | 1,242,419 | A→C | 6.4% | V103G (GTA→GGA) | dapA ← | 4‑hydroxy‑tetrahydrodipicolinate synthase |
| RA | NZ_CP022686 | 1,360,724 | G→T | 12.2% | intergenic (‑59/+265) | kgtP ← / ← rrf | alpha‑ketoglutarate permease/5S ribosomal RNA |
| RA | NZ_CP022686 | 1,370,556 | T→G | 16.6% | P99P (CCA→CCC) | rluD ← | 23S rRNA pseudouridine(1911/1915/1917) synthase RluD |
| RA | NZ_CP022686 | 1,443,501 | A→C | 8.6% | V20G (GTC→GGC) | hypF ← | carbamoyltransferase HypF |
| RA | NZ_CP022686 | 1,479,585 | T→A | 8.0% | K3* (AAA→TAA) | ftsB ← | cell division protein FtsB |
| RA | NZ_CP022686 | 1,479,586 | A→C | 5.3% | G2G (GGT→GGG) | ftsB ← | cell division protein FtsB |
| RA | NZ_CP022686 | 1,479,633 | A→C | 13.3% | intergenic (‑42/+151) | ftsB ← / ← ygbE | cell division protein FtsB/DUF3561 family protein |
| RA | NZ_CP022686 | 1,504,310 | G→T | 13.8% | M249I (ATG→ATT) | CIW80_RS07520 → | YgcG family protein |
| RA | NZ_CP022686 | 1,504,361 | G→T | 21.1% | V266V (GTG→GTT) | CIW80_RS07520 → | YgcG family protein |
| RA | NZ_CP022686 | 1,558,395 | A→C | 10.3% | K464N (AAA→AAC) | vgrG → | type VI secretion system Vgr family protein |
| RA | NZ_CP022686 | 1,564,569 | A→C | 8.4% | K190N (AAA→AAC) | CIW80_RS07780 → | ImcF‑related family protein |
| RA | NZ_CP022686 | 1,633,846 | T→G | 30.3% | N253T (AAC→ACC) | yqeB ← | selenium‑dependent molybdenum cofactor biosynthesis protein YqeB |
| RA | NZ_CP022686 | 1,674,224 | T→G | 11.1% | K188N (AAA→AAC) | ygfB ← | UPF0149 family protein YgfB |
| RA | NZ_CP022686 | 1,674,244 | T→G | 11.1% | T182P (ACC→CCC) | ygfB ← | UPF0149 family protein YgfB |
| RA | NZ_CP022686 | 1,697,914 | T→G | 8.8% | intergenic (+23/+196) | CIW80_RS08360 → / ← tkt | prohibitin family protein/transketolase |
| RA | NZ_CP022686 | 1,705,997 | C→A | 18.9% | intergenic (‑607/‑48) | yqgB ← / → metK | acid stress response protein YqgB/methionine adenosyltransferase |
| RA | NZ_CP022686 | 1,706,032 | G→T | 16.0% | intergenic (‑642/‑13) | yqgB ← / → metK | acid stress response protein YqgB/methionine adenosyltransferase |
| RA | NZ_CP022686 | 1,716,145 | A→C | 10.0% | T42P (ACC→CCC) | rdgB → | XTP/dITP diphosphatase |
| RA | NZ_CP022686 | 1,828,113 | A→C | 9.9% | P84P (CCT→CCG) | gspK ← | type II secretion system minor pseudopilin GspK |
| RA | NZ_CP022686 | 1,829,617 | A→C | 6.3% | V93G (GTT→GGT) | gspH ← | type II secretion system minor pseudopilin GspH |
| RA | NZ_CP022686 | 1,911,602 | T→G | 12.0% | N224T (AAC→ACC) | CIW80_RS09520 ← | MurR/RpiR family transcriptional regulator |
| RA | NZ_CP022686 | 1,925,353 | G→T | 9.9% | G158V (GGT→GTT) | ygiB → | DUF1190 family protein |
| RA | NZ_CP022686 | 1,925,365 | A→C | 8.2% | D162A (GAC→GCC) | ygiB → | DUF1190 family protein |
| RA | NZ_CP022686 | 2,037,521 | A→C | 10.0% | T508P (ACC→CCC) | lpoA → | penicillin‑binding protein activator LpoA |
| RA | NZ_CP022686 | 2,049,089 | T→G | 17.4% | N256T (AAC→ACC) | deaD ← | ATP‑dependent RNA helicase DeaD |
| RA | NZ_CP022686 | 2,049,094 | G→T | 15.2% | T254T (ACC→ACA) | deaD ← | ATP‑dependent RNA helicase DeaD |
| RA | NZ_CP022686 | 2,053,925 | A→C | 5.7% | V283G (GTT→GGT) | truB ← | tRNA pseudouridine(55) synthase TruB |
| RA | NZ_CP022686 | 2,061,804 | A→C | 8.3% | K391N (AAA→AAC) | argG → | argininosuccinate synthase |
| RA | NZ_CP022686 | 2,076,554 | T→G | 12.9% | intergenic (+24/‑209) | ispB → / → sfsB | octaprenyl diphosphate synthase/DNA‑binding transcriptional regulator SfsB |
| RA | NZ_CP022686 | 2,110,457 | T→G | 15.6% | K12N (AAA→AAC) | rplM ← | 50S ribosomal protein L13 |
| RA | NZ_CP022686 | 2,110,465 | T→G | 9.8% | T10P (ACC→CCC) | rplM ← | 50S ribosomal protein L13 |
| RA | NZ_CP022686 | 2,130,829 | A→C | 8.4% | V237G (GTT→GGT) | mreC ← | rod shape‑determining protein MreC |
| RA | NZ_CP022686 | 2,159,673 | C→A | 16.9% | A167E (GCA→GAA) | CIW80_RS10780 → | amino acid ABC transporter substrate‑binding protein |
| RA | NZ_CP022686 | 2,172,177 | A→C | 6.7% | G87G (GGT→GGG) | smg ← | DUF494 family protein Smg |
| RA | NZ_CP022686 | 2,179,877 | C→G | 8.7% | K35N (AAG→AAC) | rplQ ← | 50S ribosomal protein L17 |
| RA | NZ_CP022686 | 2,185,075 | A→C | 9.0% | V46G (GTT→GGT) | rpsE ← | 30S ribosomal protein S5 |
| RA | NZ_CP022686 | 2,214,419 | T→C | 100% | K43R (AAA→AGA) | rpsL ← | 30S ribosomal protein S12 |
| RA | NZ_CP022686 | 2,293,025 | T→G | 5.6% | N95T (AAC→ACC) | rtcB ← | RNA‑splicing ligase RtcB |
| 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 | 7.5% | F83V (TTT→GTT) | yhhN → | lysoplasmalogenase |
| RA | NZ_CP022686 | 2,362,972 | T→G | 6.4% | F158V (TTT→GTT) | nikB → | nickel ABC transporter permease subunit NikB |
| RA | NZ_CP022686 | 2,393,050 | C→A | 7.5% | F12L (TTC→TTA) | dctR → | LuxR C‑terminal‑related transcriptional regulator |
| RA | NZ_CP022686 | 2,394,287 | T→G | 15.7% | N115T (AAC→ACC) | chuS ← | hematinate‑forming heme oxygenase ChuS |
| RA | NZ_CP022686 | 2,398,896 | A→C | 10.6% | K206N (AAA→AAC) | hutW → | heme anaerobic degradation radical SAM methyltransferase ChuW/HutW |
| RA | NZ_CP022686 | 2,400,789 | T→G | 7.8% | intergenic (+43/‑6) | chuY → / → shuU | anaerobilin reductase/heme ABC transporter permease ShuU/ChuU |
| RA | NZ_CP022686 | 2,408,861 | Δ1 bp | 100% | pseudogene (1097/3115 nt) | mdtF → | multidrug efflux pump RND permease MdtF |
| RA | NZ_CP022686 | 2,421,650 | A→C | 5.9% | T313P (ACG→CCG) | yhjD → | inner membrane protein YhjD |
| RA | NZ_CP022686 | 2,421,691 | A→C | 10.6% | K326N (AAA→AAC) | yhjD → | inner membrane protein YhjD |
| RA | NZ_CP022686 | 2,460,576 | C→A | 10.6% | M1M (ATG→ATT) † | yhjY ← | autotransporter outer membrane beta‑barrel domain‑containing protein |
| RA | NZ_CP022686 | 2,460,581 | A→C | 22.8% | intergenic (‑3/‑155) | yhjY ← / → tag | autotransporter outer membrane beta‑barrel domain‑containing protein/DNA‑3‑methyladenine glycosylase I |
| RA | NZ_CP022686 | 2,470,422 | T→G | 13.4% | K72N (AAA→AAC) | glyS ← | glycine‑‑tRNA ligase subunit beta |
| RA | NZ_CP022686 | 2,502,553 | A→C | 27.0% | I539S (ATC→AGC) | selB ← | selenocysteine‑specific translation elongation factor |
| RA | NZ_CP022686 | 2,516,577 | A→G | 8.6% | T663A (ACA→GCA) | upaG → | trimeric autotransporter adhesin UpaG |
| RA | NZ_CP022686 | 2,516,873 | A→C | 8.5% | K761N (AAA→AAC) | upaG → | trimeric autotransporter adhesin UpaG |
| RA | NZ_CP022686 | 2,546,394 | A→C | 16.0% | V95G (GTT→GGT) | waaG ← | glycosyltransferase family 4 protein |
| RA | NZ_CP022686 | 2,558,864 | T→G | 6.4% | F128V (TTT→GTT) | yicG → | trimeric intracellular cation channel family protein |
| RA | NZ_CP022686 | 2,572,705 | A→C | 8.7% | G191G (GGT→GGG) | CIW80_RS12885 ← | ROK family protein |
| RA | NZ_CP022686 | 2,574,429 | T→G | 8.3% | N230T (AAC→ACC) | CIW80_RS12895 ← | class II fructose‑bisphosphate aldolase family protein |
| RA | NZ_CP022686 | 2,574,451 | T→G | 9.9% | T223P (ACT→CCT) | 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 | 2,603,117 | T→G | 6.4% | G197G (GGT→GGG) | yicL → | carboxylate/amino acid/amine transporter |
| RA | NZ_CP022686 | 2,676,885 | T→G | 5.1% | D336A (GAC→GCC) | atpD ← | F0F1 ATP synthase subunit beta |
| RA | NZ_CP022686 | 2,681,221 | T→G | 5.4% | T62P (ACC→CCC) | atpF ← | F0F1 ATP synthase subunit B |
| RA | NZ_CP022686 | 2,717,385 | T→G | 9.2% | F96V (TTT→GTT) | ilvA → | threonine ammonia‑lyase, biosynthetic |
| RA | NZ_CP022686 | 2,726,623 | A→C | 5.4% | intergenic (‑100/‑31) | rhlB ← / → trxA | ATP‑dependent RNA helicase RhlB/thioredoxin TrxA |
| RA | NZ_CP022686 | 2,743,563 | T→G | 10.5% | noncoding (65/87 nt) | CIW80_RS13750 → | tRNA‑Leu |
| RA | NZ_CP022686 | 2,758,109 | A→C | 5.5% | N34T (AAC→ACC) | yifL → | lipoprotein |
| RA | NZ_CP022686 | 2,758,128 | A→C | 9.9% | K40N (AAA→AAC) | yifL → | lipoprotein |
| RA | NZ_CP022686 | 2,758,153 | A→C | 8.0% | T49P (ACG→CCG) | yifL → | lipoprotein |
| RA | NZ_CP022686 | 2,758,162 | G→T | 11.9% | D52Y (GAT→TAT) | yifL → | lipoprotein |
| RA | NZ_CP022686 | 2,769,166 | C→A | 14.8% | C57F (TGC→TTC) | rarD ← | EamA family transporter RarD |
| RA | NZ_CP022686 | 2,769,186 | C→A | 16.0% | M50I (ATG→ATT) | rarD ← | EamA family transporter RarD |
| RA | NZ_CP022686 | 2,801,864 | T→G | 5.6% | L16F (TTA→TTC) | CIW80_RS14030 ← | 2‑dehydro‑3‑deoxy‑6‑phosphogalactonate aldolase |
| RA | NZ_CP022686 | 2,810,040 | A→C | 7.1% | N242T (AAC→ACC) | tatC → | Sec‑independent protein translocase subunit TatC |
| RA | NZ_CP022686 | 2,868,740 | T→G | 26.5% | Q22P (CAG→CCG) | fdoH ← | formate dehydrogenase O subunit beta |
| RA | NZ_CP022686 | 2,868,753 | T→G | 18.0% | T18P (ACC→CCC) | fdoH ← | formate dehydrogenase O subunit beta |
| RA | NZ_CP022686 | 2,920,428 | A→C | 8.2% | K68N (AAA→AAC) | CIW80_RS14610 → | bifunctional UDP‑sugar hydrolase/5'‑nucleotidase |
| RA | NZ_CP022686 | 3,017,622 | A→C | 17.0% | K839N (AAA→AAC) | metH → | methionine synthase |
| RA | NZ_CP022686 | 3,020,229 | T→G | 11.5% | V133G (GTC→GGC) | yjbB → | Na/Pi cotransporter family protein |
| RA | NZ_CP022686 | 3,070,945 | T→G | 9.4% | F40V (TTT→GTT) | CIW80_RS15290 → | 2‑oxoglutarate dehydrogenase E1 component |
| RA | NZ_CP022686 | 3,080,461 | T→G | 12.2% | R158R (CGT→CGG) | CIW80_RS15320 → | Ldh family oxidoreductase |
| RA | NZ_CP022686 | 3,136,940 | T→G | 11.6% | D161A (GAC→GCC) | phnN ← | ribose 1,5‑bisphosphokinase |
| RA | NZ_CP022686 | 3,136,948 | G→T | 10.8% | L158L (CTC→CTA) | 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 | 3,287,046 | A→C | 6.5% | K117N (AAA→AAC) | cybC → | cytochrome b562 |
| 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 | 15.5% | T530P (ACC→CCC) | btsT ← | pyruvate/proton symporter BtsT |
| RA | NZ_CP022686 | 3,461,229 | T→G | 19.3% | noncoding (84/87 nt) | CIW80_RS17340 ← | tRNA‑Leu |
| RA | NZ_CP022686 | 3,509,248 | T→G | 31.7% | L572R (CTG→CGG) | dnaK → | molecular chaperone DnaK |
| RA | NZ_CP022686 | 3,529,239 | A→C | 7.3% | K397N (AAA→AAC) | carB → | carbamoyl‑phosphate synthase large subunit |
| RA | NZ_CP022686 | 3,570,234 | T→G | 9.5% | L217V (TTG→GTG) | yabI → | DedA family protein |
| RA | NZ_CP022686 | 3,604,564 | G→T | 15.6% | intergenic (+80/‑151) | lpxC → / → secM | UDP‑3‑O‑acyl‑N‑acetylglucosamine deacetylase/secA translation cis‑regulator SecM |
| RA | NZ_CP022686 | 3,607,152 | T→A | 15.9% | W622R (TGG→AGG) | secA → | preprotein translocase subunit SecA |
| RA | NZ_CP022686 | 3,625,683 | T→G | 10.6% | A150A (GCT→GCG) | aceE → | pyruvate dehydrogenase (acetyl‑transferring), homodimeric type |
| RA | NZ_CP022686 | 3,656,188 | A→G | 100% | S549P (TCC→CCC) | htrE ← | outer membrane usher protein |
| RA | NZ_CP022686 | 3,667,058 | A→C | 7.8% | D5A (GAC→GCC) | mrcB → | bifunctional glycosyl transferase/transpeptidase |
| RA | NZ_CP022686 | 3,734,367 | T→G | 23.9% | F225V (TTT→GTT) | yafD → | endonuclease/exonuclease/phosphatase family protein |
| RA | NZ_CP022686 | 3,734,380 | T→G | 18.4% | L229R (CTC→CGC) | yafD → | endonuclease/exonuclease/phosphatase family protein |
| RA | NZ_CP022686 | 3,736,531 | T→G | 5.7% | N74H (AAC→CAC) | mltD ← | murein transglycosylase D |
| RA | NZ_CP022686 | 3,770,526 | C→G | 10.9% | 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 | 3,797,481 | T→G | 12.5% | L130V (TTA→GTA) | CIW80_RS19065 → | LacI family DNA‑binding transcriptional regulator |
| RA | NZ_CP022686 | 3,868,846 | T→G | 16.9% | T383P (ACG→CCG) | ecpC ← | fimbrial usher EcpC |
| RA | NZ_CP022686 | 3,925,289 | A→C | 12.6% | N156T (AAC→ACC) | prpC → | 2‑methylcitrate synthase |
| RA | NZ_CP022686 | 3,925,304 | A→C | 12.0% | Q161P (CAG→CCG) | prpC → | 2‑methylcitrate synthase |
| RA | NZ_CP022686 | 3,935,324 | T→G | 9.7% | N705T (AAC→ACC) | lacZ ← | beta‑galactosidase |
| RA | NZ_CP022686 | 3,940,724 | A→C | 9.0% | V308G (GTA→GGA) | frmA ← | S‑(hydroxymethyl)glutathione dehydrogenase |
| RA | NZ_CP022686 | 3,977,656 | A→C | 9.7% | K88N (AAA→AAC) | phoR → | phosphate regulon sensor histidine kinase PhoR |
| RA | NZ_CP022686 | 4,014,238 | C→G | 14.7% | intergenic (+84/‑260) | bolA → / → tig | transcriptional regulator BolA/trigger factor |
| RA | NZ_CP022686 | 4,014,247 | G→T | 8.3% | intergenic (+93/‑251) | bolA → / → tig | transcriptional regulator BolA/trigger factor |
| RA | NZ_CP022686 | 4,056,946 | T→G | 10.9% | V132G (GTT→GGT) | adk → | adenylate kinase |
| RA | NZ_CP022686 | 4,056,951 | C→A | 17.5% | H134N (CAC→AAC) | adk → | adenylate kinase |
| RA | NZ_CP022686 | 4,056,962 | C→A | 17.7% | F137L (TTC→TTA) | adk → | adenylate kinase |
| RA | NZ_CP022686 | 4,188,944 | A→C | 7.1% | V321G (GTA→GGA) | rlpA ← | endolytic peptidoglycan transglycosylase RlpA |
| RA | NZ_CP022686 | 4,213,260 | T→G | 7.0% | C188W (TGT→TGG) | ubiF → | 3‑demethoxyubiquinol 3‑hydroxylase |
| RA | NZ_CP022686 | 4,268,546 | C→T | 13.7% | A153V (GCA→GTA) | sdhB → | succinate dehydrogenase iron‑sulfur subunit SdhB |
| RA | NZ_CP022686 | 4,269,248 | A→C | 10.3% | intergenic (+443/‑108) | sdhB → / → sucA | succinate dehydrogenase iron‑sulfur subunit SdhB/2‑oxoglutarate dehydrogenase E1 component |
| RA | NZ_CP022686 | 4,280,095 | T→G | 8.2% | G103G (GGT→GGG) | cydB → | cytochrome d ubiquinol oxidase subunit II |
| RA | NZ_CP022686 | 4,287,507 | T→G | 11.1% | noncoding (20/76 nt) | CIW80_RS21480 → | tRNA‑Lys |
| RA | NZ_CP022686 | 4,368,341 | T→G | 13.4% | D47A (GAC→GCC) | ybiY ← | glycyl‑radical enzyme activating protein |
| RA | NZ_CP022686 | 4,412,269 | A→C | 9.3% | F246V (TTT→GTT) | ybjT ← | SDR family oxidoreductase |
| RA | NZ_CP022686 | 4,440,334 | A→C | 19.1% | Q797H (CAA→CAC) | ftsK → | DNA translocase FtsK |
| RA | NZ_CP022686 | 4,605,579 | T→G | 14.8% | T56P (ACG→CCG) | CIW80_RS23010 ← | hypothetical protein |
| RA | NZ_CP022686 | 4,632,182 | T→G | 11.6% | R276R (CGT→CGG) | mchF → | microcin export transporter peptidase/ATP‑binding subunit MchF |
| RA | NZ_CP022686 | 4,632,186 | G→T | 8.8% | G278C (GGC→TGC) | mchF → | microcin export transporter peptidase/ATP‑binding subunit MchF |
| RA | NZ_CP022686 | 4,638,424 | G→T | 6.0% | L109L (CTG→CTT) | CIW80_RS23235 → | S/F1C fimbrial major subunit operon transcriptional regulator |
| RA | NZ_CP022686 | 4,642,954 | A→C | 7.3% | Q733P (CAG→CCG) | sfaF → | S/F1C fimbrial usher SfaF/FocD |
| RA | NZ_CP022686 | 4,678,047 | A→C | 22.7% | intergenic (+45/‑76) | agn43 → / → CIW80_RS23450 | autotransporter adhesin Ag43/hypothetical protein |
| RA | NZ_CP022686 | 4,704,781 | A→C | 8.6% | G118G (GGT→GGG) | mdtG ← | multidrug efflux MFS transporter MdtG |
| RA | NZ_CP022686 | 4,764,877 | T→G | 10.0% | intergenic (‑57/‑204) | ycfT ← / → lolC | acyltransferase family protein/lipoprotein‑releasing ABC transporter permease subunit LolC |
| RA | NZ_CP022686 | 4,814,990 | T→G | 12.1% | F71V (TTT→GTT) | CIW80_RS24295 → | phage tail protein |
| 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 | 14.9% | G112G (GGT→GGG) | CIW80_RS24815 → | coenzyme F390 synthetase |
| RA | NZ_CP022686 | 4,937,070 | A→C | 7.9% | G172G (GGT→GGG) | trpA ← | tryptophan synthase subunit alpha |
| RA | NZ_CP022686 | 5,041,191 | G→A | 6.3% | A274A (GCG→GCA) | 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 | 3,762 | G→T | 5.4% | E52* (GAA→TAA) | IL2wt no signal → | |
| JC | pMut‑Ompa‑D5‑IL2wt‑His6 | 4,019 | +CAT | 7.2% | intergenic (+12/+37) | IL2wt no signal → / ← annotated as hok_sok locus | –/– |
| RA | pMut‑Ompa‑D5‑IL2wt‑His6 | 4,818 | A→C | 12.8% | intergenic (‑183/+391) | 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 | –/– |
| RA | pMut‑Ompa‑D5‑IL2wt‑His6 | 4,883 | T→G | 7.7% | intergenic (‑248/+326) | annotated as hok_sok locus ← / ← putative HTH domain protein | –/– |
| RA | pMut‑Ompa‑D5‑IL2wt‑His6 | 4,899 | G→T | 7.8% | intergenic (‑264/+310) | annotated as hok_sok locus ← / ← putative HTH domain protein | –/– |
| RA | pMut‑Ompa‑D5‑IL2wt‑His6 | 4,915 | G→T | 10.1% | intergenic (‑280/+294) | annotated as hok_sok locus ← / ← putative HTH domain protein | –/– |
| RA | pMut‑Ompa‑D5‑IL2wt‑His6 | 4,922 | G→T | 8.6% | intergenic (‑287/+287) | annotated as hok_sok locus ← / ← putative HTH domain protein | –/– |
| RA | pMut‑Ompa‑D5‑IL2wt‑His6 | 4,933 | G→T | 8.3% | intergenic (‑298/+276) | annotated as hok_sok locus ← / ← putative HTH domain protein | –/– |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NZ_MW240712 | 394–2618 | 3050–2957 | 340–2657 | 7424 [7206] | [7195] 7550 | [JNG15_RS00005]–mobA | [JNG15_RS00005],JNG15_RS00010,JNG15_RS00015,mobA |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP022686 | 329060 = | 128 (0.670) | 14 (0.070) | 14/248 | NT | 9.9% | intergenic (‑8/‑153) | ydjA/sppA | NAD(P)H nitroreductase/signal peptide peptidase SppA |
| ? | NZ_CP022686 | = 1524129 | NA (NA) | intergenic (+7/+233) | CIW80_RS07590/syd | IS3‑like element ISEc52 family transposase/SecY‑interacting protein | |||||
| * | ? | NZ_CP022686 | = 329063 | 128 (0.670) | 20 (0.100) | 16/250 | NT | 13.5% | intergenic (‑11/‑150) | ydjA/sppA | NAD(P)H nitroreductase/signal peptide peptidase SppA |
| ? | NZ_CP022686 | 1522881 = | NA (NA) | intergenic (‑394/‑72) | yqcC/CIW80_RS07590 | YqcC family protein/IS3‑like element ISEc52 family transposase | |||||
| * | ? | NZ_CP022686 | 1123563 = | 143 (0.750) | 54 (0.280) | 38/250 | NT | 27.4% | coding (4434/7950 nt) | CIW80_RS05650 | phase‑variable autotransporter adhesin UpaE |
| ? | NZ_CP022686 | 1522881 = | NA (NA) | intergenic (‑394/‑72) | yqcC/CIW80_RS07590 | YqcC family protein/IS3‑like element ISEc52 family transposase | |||||
| * | ? | NZ_CP022686 | = 1123565 | 145 (0.760) | 35 (0.180) | 28/250 | NT | 19.4% | coding (4432/7950 nt) | CIW80_RS05650 | phase‑variable autotransporter adhesin UpaE |
| ? | NZ_CP022686 | = 1524130 | NA (NA) | intergenic (+8/+232) | CIW80_RS07590/syd | IS3‑like element ISEc52 family transposase/SecY‑interacting protein | |||||
| * | ? | NZ_CP022686 | 1522881 = | NA (NA) | 1919 (0.410) | 175/250 | NT | 20.1% | intergenic (‑394/‑72) | yqcC/CIW80_RS07590 | YqcC family protein/IS3‑like element ISEc52 family transposase |
| ? | pMut‑Ompa‑D5‑IL2wt‑His6 | 3885 = | 7606 (0.830) | coding (277/399 nt) | IL2wt no signal | ||||||
| * | ? | NZ_CP022686 | 1760449 = | NA (NA) | 2109 (0.450) | 174/248 | NT | 22.0% | coding (1100/1101 nt) | CIW80_RS08705 | IS30‑like element IS30 family transposase |
| ? | pMut‑Ompa‑D5‑IL2wt‑His6 | = 3888 | 7541 (0.820) | coding (280/399 nt) | IL2wt no signal | ||||||
| * | ? | NZ_CP022686 | = 3395241 | NA (NA) | 18 (0.000) +21 bp |
13/208 | NT | 73.0% | pseudogene (11/1107 nt) | yjhR | helicase YjhR |
| ? | pMut‑Ompa‑D5‑IL2wt‑His6 | = 3594 | 8 (0.000) | intergenic (+1/‑15) | ompA/IL2wt no signal | –/– | |||||
| * | ? | NZ_CP022686 | 3899666 = | 207 (1.080) | 34 (0.200) | 28/218 | NT | 16.5% | intergenic (‑40/+290) | hyxR/ipbA | LuxR family transcriptional regulator HyxR/tyrosine‑type DNA invertase IpbA |
| ? | NZ_CP022686 | 3899944 = | 164 (0.980) | intergenic (‑318/+12) | hyxR/ipbA | LuxR family transcriptional regulator HyxR/tyrosine‑type DNA invertase IpbA | |||||
| * | ? | NZ_CP022686 | = 3899681 | 200 (1.040) | 36 (0.220) | 27/218 | NT | 17.6% | intergenic (‑55/+275) | hyxR/ipbA | LuxR family transcriptional regulator HyxR/tyrosine‑type DNA invertase IpbA |
| ? | NZ_CP022686 | = 3899927 | 164 (0.980) | intergenic (‑301/+29) | hyxR/ipbA | LuxR family transcriptional regulator HyxR/tyrosine‑type DNA invertase IpbA | |||||
| * | ? | NZ_CP022686 | 4514374 = | 196 (1.020) | 8 (0.000) +AGCT |
7/242 | NT | 7.5% | coding (59/1053 nt) | ompA | porin OmpA |
| ? | pMut‑Ompa‑D5‑IL2wt‑His6 | 3609 = | 8 (0.000) | coding (1/399 nt) | IL2wt no signal | ||||||
| * | ? | NZ_MW240712 | 3 = | 0 (0.000) | 219 (0.020) +CC |
84/246 | NT | 100% | intergenic (–/+204) | –/JNG15_RS00005 | –/helix‑turn‑helix domain‑containing protein |
| ? | NZ_MW240712 | = 3173 | 0 (0.000) | intergenic (+182/–) | mobA/– | plasmid mobilization protein MobA/– | |||||