breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
Predicted mutations | |||||
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evidence | position | mutation | annotation | gene | description |
RA | 12,086 | C→T | intergenic (‑300/‑77) | yaaI ← / → dnaK | DUF2541 domain‑containing protein YaaI/chaperone protein DnaK |
MC JC | 15,389 | Δ5,175 bp | insL‑1–insA‑1 | insL‑1, hokC, mokC, sokC, nhaA, nhaR, insB‑1, insA‑1 | |
MC JC | 92,854 | (GCG)4→3 | coding (1442‑1444/1767 nt) | ftsI → | peptidoglycan DD‑transpeptidase FtsI |
RA | 119,028 | T→C | V99A (GTC→GCC) | ampD → | 1,6‑anhydro‑N‑acetylmuramoyl‑L‑alanine amidase |
MC JC | 167,484 | Δ5,964 bp | [fhuA]–fhuB | [fhuA], fhuC, fhuD, fhuB | |
RA | 214,885 | C→T | T18I (ACC→ATC) | arfB → | peptidyl‑tRNA hydrolase, ribosome rescue factor |
RA | 220,099 | A→G | intergenic (‑104/+14) | rcsF ← / ← metQ | outer membrane lipoprotein RcsF/L‑methionine/D‑methionine ABC transporter membrane anchored binding protein |
RA | 257,794 | T→C | intergenic (+23/‑35) | frsA → / → crl | fermentation‑respiration switch protein/RNA polymerase holoenzyme assembly factor Crl |
MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
MC JC | 263,514 | Δ61,897 bp | [ykfI]–ykgH | 71 genes [ykfI], yafW, ykfH, ykfG, yafX, ykfF, ykfB, yafY, yafZ, ykfA, perR, insN, insI‑1, insN, eyeA, ykfC, insH‑1, mmuP, mmuM, afuC, afuB, insB‑2, insA‑2, yagB, yagA, yagE, yagF, yagG, yagH, xynR, argF, ykgS, insB‑3, insA‑3, yagJ, yagK, yagL, yagM, ykgV, yagN, intF, yagP, paoD, paoC, paoB, paoA, yagU, ykgJ, ecpE, ecpD, ecpC, ecpB, ecpA, ecpR, ykgL, ykgO, ykgM, ykgR, ykgP, eaeH, insE‑1, insF‑1, ykgA, rclC, rclB, rclA, rclR, ykgE, ykgF, ykgG, ykgH |
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MC JC | 332,366 | Δ44,951 bp | pdeL–yaiL | 39 genes pdeL, yahB, yahC, yahD, yahE, yahF, yahG, yahH, yahI, yahJ, yahK, yahL, yahM, yahN, yahO, prpR, prpB, prpC, prpD, prpE, codB, codA, cynR, cynT, cynS, cynX, lacA, lacY, lacZ, lacI, mhpR, mhpA, mhpB, mhpC, mhpD, mhpF, mhpE, mhpT, yaiL |
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RA | 380,022 | (G)10→9 | intergenic (‑141/+47) | frmR ← / ← yaiO | DNA‑binding transcriptional repressor FrmR/outer membrane protein YaiO |
MC JC | 389,898 | Δ9,908 bp | yaiT–[yaiZ] | yaiT, insF‑2, insE‑2, yaiT, iprA, ampH, sbmA, yaiW, yaiY, [yaiZ] | |
MC JC | 508,873 | Δ40,744 bp | copA–[ylbE] | 37 genes copA, copA, copA, glsA, ybaT, cueR, ybbJ, qmcA, fetA, fetB, cnoX, ybbO, tesA, ybbA, ybbP, rhsD, ybbC, ylbH, ybbD, ylbI, ylbG, selU, allS, allA, allR, gcl, hyi, glxR, ybbW, allB, ybbY, glxK, allE, allC, allD, fdrA, [ylbE] |
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MC JC | 565,055 | Δ21,054 bp | [intD]–ompT | 37 genes [intD], xisD, exoD, renD, insE‑3, insF‑3, renD, emrE, ylcJ, ybcK, ybcL, ybcM, ylcH, ybcN, ninE, ybcO, rusA, ylcG, ybcQ, nmpC, insH‑2, nmpC, essD, rrrD, rzpD, rzoD, borD, ybcV, ybcW, ylcI, nohD, aaaD, tfaD, ybcY, tfaX, appY, ompT |
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MC JC | 603,467 | Δ5,885 bp | [ybdG]–insL‑2 | [ybdG], nfsB, ybdF, ybdJ, ybdK, sokE, hokE, insL‑2 | |
RA | 612,647 | C→T | intergenic (‑153/‑90) | fepA ← / → fes | ferric enterobactin outer membrane transporter/enterochelin esterase |
MC JC | 675,552 | Δ7,819 bp | ybeQ–[hscC] | ybeQ, ybeR, djlB, ybeT, ybeU, djlC, [hscC] | |
MC JC | 687,860 | Δ1,185 bp | IS5‑mediated | insH‑3 | insH‑3 |
MC JC | 729,365 | Δ9,598 bp | rhsC–ybfD | rhsC, ybfB, ybfO, ybfC, ybfQ, ybfL, ybfD | |
RA | 765,191 | Δ1 bp | coding (685/723 nt) | mngR ← | DNA‑binding transcriptional repressor MngR |
MC JC | 765,208 | Δ5,405 bp | [mngR]–mngB | [mngR], mngA, mngB | |
MC JC | 819,776 | Δ62,977 bp | ybhL–deoR | 57 genes ybhL, ybhM, ybhN, clsB, ybhP, ybhQ, ybhR, ybhS, ybhF, ybhG, cecR, rhlE, ybiA, dinG, ybiB, hcxB, ybiJ, ybiI, ybiX, fiu, mcbA, rlmF, ybiO, glnQ, glnP, glnH, dps, rhtA, yliM, ompX, opgE, rybA, mntS, mntR, ybiR, ldtB, ybiT, ybiU, ybiV, ybiW, ybiY, fsaA, moeB, moeA, iaaA, gsiA, gsiB, gsiC, gsiD, pdeI, dgcI, rimO, bssR, yliI, gstB, dacC, deoR |
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RA | 972,866 | Δ1 bp | coding (536/780 nt) | elyC ← | envelope biogenesis factor |
RA | 978,231 | C→T | L636L (CTG→TTG) | mukB → | chromosome partitioning protein MukB |
RA | 988,499 | G→A | P163S (CCA→TCA) | asnS ← | asparagine‑‑tRNA ligase |
MC JC | 997,868 | Δ6,818 bp | [elfA]–ycbF | [elfA], elfD, elfC, elfG, ycbU, ycbV, ycbF | |
MC JC | 1,040,502 | Δ73,763 bp | [appX]–[mdtG] | 75 genes [appX], appA, etk, etp, gfcE, gfcD, gfcC, gfcB, gfcA, insA‑4, insB‑4, cspH, cspG, ymcF, ymcE, gnsA, yccM, torS, torT, torR, torC, torA, torD, cbpM, cbpA, yccE, agp, yccJ, wrbA, ymdF, rutG, rutF, rutE, rutD, rutC, rutB, rutA, rutR, putA, ymdG, putP, efeU, efeO, efeB, phoH, pgaD, pgaC, pgaB, pgaA, dgcT, insF‑4, insE‑4, ymdE, ycdU, serX, ghrA, ycdX, ycdY, ycdZ, csgG, csgF, csgE, csgD, csgB, csgA, csgC, ymdA, ymdB, clsC, opgC, opgG, opgH, yceK, msyB, [mdtG] |
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MC JC | 1,129,397 | Δ11,591 bp | flgN–flgL | flgN, flgM, flgA, flgB, flgC, flgD, flgE, flgF, flgG, flgH, flgI, flgJ, flgK, flgL | |
RA | 1,154,362 | C→T | A84V (GCC→GTC) | mltG → | endolytic murein transglycosylase |
MC JC | 1,197,137 | 25956 bp→12 bp | [ymfD]–[ymgI] | 42 genes [ymfD], ymfE, lit, intE, xisE, ymfH, ymfI, ymfJ, ymfK, ymfT, ymfL, ymfM, oweE, ymfN, aaaE, ymfR, beeE, jayE, ymfQ, ycfK, tfaP, tfaE, stfE, pinE, mcrA, icdC, iraM, ymgK, ymgL, ycgX, bluR, bluF, ycgZ, ymgA, ariR, ymgC, pdeG, ymgF, ycgH, ymgD, ymgG, [ymgI] |
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RA | 1,240,439 | C→T | V60V (GTC→GTT) D545N (GAC→AAC) |
ymgM → cvrA ← |
protein YmgM putative K(+):H(+) antiporter |
RA | 1,270,811 | C→T | V347M (GTG→ATG) | chaA ← | Na(+)/K(+):H(+) antiporter ChaA |
MC JC | 1,299,499 | Δ1,199 bp | insH21 | insH21 | |
RA | 1,382,555 | C→T | S203S (AGC→AGT) | ompG → | outer membrane porin G |
MC JC | 1,388,889 | Δ9,734 bp | ycjG–[uspE] | ycjG, mpaA, ymjC, ymjD, ycjY, pgrR, mppA, ynaI, insH‑4, ynaJ, [uspE] | |
RA | 1,400,309 | Δ1 bp | coding (1465/1527 nt) | abgT ← | p‑aminobenzoyl glutamate:H(+) symporter |
RA | 1,400,314 | Δ1 bp | coding (1460/1527 nt) | abgT ← | p‑aminobenzoyl glutamate:H(+) symporter |
MC JC | 1,400,325 | Δ81,931 bp | [abgT]–[azoR] | 87 genes [abgT], abgB, abgA, abgR, mcaS, smrA, dgcM, zntB, fnrS, ynaL, dbpA, ttcA, intR, xisR, rcbA, ralA, ralR, recT, recE, racC, ydaE, kilR, sieB, ydaF, ydaG, racR, ydaS, ydaT, ydaU, ydaV, ydaW, rzpR, rzoR, trkG, ynaK, ydaY, ynaA, lomR, insH‑5, lomR, stfR, tfaR, pinR, ynaE, ynaM, ttcC, uspF, ompN, micC, ydbK, ydbJ, hslJ, ldhA, ydbH, ynbE, ydbL, feaR, feaB, tynA, paaZ, paaA, paaB, paaC, paaD, paaE, paaF, paaG, paaH, paaI, paaJ, paaK, paaX, paaY, ynbG, ydbA, insD‑2, insC‑2, ydbA, insI‑2, ydbA, pdxI, ydbD, ynbA, ynbB, ynbC, ynbD, [azoR] |
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MC JC | 1,509,562 | Δ46,201 bp | [hicB]–maeA | 43 genes [hicB], ydcR, ydcS, ydcT, ydcU, ydcV, patD, yncL, ortT, ydcY, ydcZ, mnaT, curA, mcbR, yncD, yncE, ansP, yncG, yncH, rhsE, ydcD, yncO, yncI, ydcC, pptA, yddH, nhoA, yddE, narV, narW, narY, narZ, narU, yddJ, yddK, yddL, yddG, fdnG, fdnH, fdnI, yddM, adhP, maeA |
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RA | 1,562,085 | C→T | A133T (GCA→ACA) | ddpA ← | putative D,D‑dipeptide ABC transporter periplasmic binding protein |
RA | 1,626,996 | C→T | D129N (GAT→AAT) | dcp ← | peptidyl‑dipeptidase Dcp |
MC JC | 1,627,518 | Δ25,244 bp | [ydfG]–[ynfP] | 48 genes [ydfG], ydfH, ydfZ, ydfI, ydfJ, ynfT, ydfK, pinQ, tfaQ, ydfN, nohA, ynfO, ydfO, gnsB, ynfN, ynfR, ynfQ, cspI, rzpQ, rzoQ, rrrQ, ydfR, essQ, cspB, cspF, ynfS, ydfT, ydfU, rem, hokD, relE, relB, ydfV, flxA, ydfW, ydfX, dicC, dicA, ydfA, ydfB, ydfC, dicF, dicB, ydfD, ydfE, insD‑7, intQ, [ynfP] |
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RA | 1,656,514 | G→A | G111S (GGC→AGC) | speG → | spermidine N‑acetyltransferase |
RA | 1,662,872 | C→T | R773W (CGG→TGG) | ynfF → | putative selenate reductase YnfF |
RA | 1,697,216 | T→C | intergenic (‑164/+57) | uidR ← / ← hdhA | DNA‑binding transcriptional repressor UidR/7‑alpha‑hydroxysteroid dehydrogenase |
RA | 1,741,062 | T→C | C384C (TGT→TGC) | ydhC → | putative transporter YdhC |
RA | 1,742,755 | G→C | P163R (CCG→CGG) | ribC ← | riboflavin synthase |
RA | 1,776,533 | G→A | G316D (GGC→GAC) | ydiF → | putative acetate‑CoA transferase |
RA | 1,811,208 | T→C | V92A (GTT→GCT) | tcyP → | cystine/sulfocysteine:cation symporter |
RA | 1,847,724 | (C)6→7 | coding (285/1044 nt) | selD ← | selenide, water dikinase |
MC JC | 1,872,030 | Δ1,437 bp | [dgcJ] | [dgcJ] | |
RA | 1,898,152 | G→A | A407A (GCG→GCA) | sdaA → | L‑serine deaminase I |
RA | 1,907,399 | C→T | E13K (GAG→AAG) | cspC ← | stress protein, member of the CspA family |
RA | 1,941,784 | A→G | V267A (GTC→GCC) | znuA ← | Zn(2(+)) ABC transporter periplasmic binding protein |
MC JC | 1,962,566 | Δ16,764 bp | flhE–insA‑5 | 17 genes flhE, flhA, flhB, cheZ, cheY, cheB, cheR, tap, tar, cheW, cheA, motB, motA, flhC, flhD, insB‑5, insA‑5 |
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MC JC | 1,997,112 | Δ26,567 bp | [tcyN]–[fliR] | 32 genes [tcyN], tcyL, dcyD, tcyJ, fliZ, fliA, fliC, fliD, fliS, fliT, amyA, yedD, yedE, yedF, yedK, yedL, yedN, intG, fliE, fliF, fliG, fliH, fliI, fliJ, fliK, fliL, fliM, fliN, fliO, fliP, fliQ, [fliR] |
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RA | 2,040,801 | T→C | L107L (TTA→CTA) | msrQ → | periplasmic protein‑L‑methionine sulfoxide reductase heme binding subunit |
MC JC | 2,101,397 | Δ36,321 bp | [wbbL]–wza | 34 genes [wbbL], insH‑7, wbbL, wbbK, wbbJ, wbbI, wbbH, glf, rfbX, rfbC, rfbA, rfbD, rfbB, galF, wcaM, wcaL, wcaK, wzxC, wcaJ, cpsG, cpsB, wcaI, gmm, fcl, gmd, wcaF, wcaE, wcaD, wcaC, wcaB, wcaA, wzc, wzb, wza |
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MC JC | 2,165,151 | Δ12,060 bp | yegP–gatY | 17 genes yegP, yegQ, cyaR, ogrK, yegZ, yegR, yegS, gatR, insE‑5, insF‑5, gatR, gatD, gatC, gatB, gatA, gatZ, gatY |
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MC JC | 2,204,350 | Δ32,368 bp | yehL–preA | 30 genes yehL, yehM, yehP, yehQ, yehR, yehS, btsR, btsS, mlrA, yohO, yehW, yehX, yehY, osmF, bglX, dld, pbpG, yohC, yohD, yohF, mdtQ, yohP, dusC, yohJ, yohK, cdd, sanA, yeiS, preT, preA |
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MC JC | 2,286,401 | Δ3,780 bp | [yejO]–[yejO] | [yejO], insH‑8, [yejO] | |
MC JC | 2,320,144 | Δ16,489 bp | [atoS]–[yfaA] | [atoS], atoC, atoD, atoA, atoE, atoB, yfaP, yfaQ, yfaS, yfaT, [yfaA] | |
RA | 2,406,141 | A→G | R167R (CGT→CGC) | lrhA ← | DNA‑binding transcriptional dual regulator LrhA |
MC JC | 2,466,545 | Δ9,634 bp | [intS]–[ypdJ] | 15 genes [intS], yfdG, yfdH, yfdI, yfdK, yfdL, yfdM, yfdN, yfdO, yfdP, yfdQ, yfdR, yfdS, [yfdT], [ypdJ] |
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MC JC | 2,509,631 | Δ8,319 bp | [yfeO]–pdeA | [yfeO], ypeC, mntH, nupC, insL‑3, pdeA | |
MC JC | 2,558,699 | Δ6,790 bp | intZ–[eutA] | intZ, yffL, yffM, yffN, yffO, yffP, yffQ, yffR, yffS, [eutA] | |
MC JC | 2,601,201 | Δ13,595 bp | [hyfA]–focB | [hyfA], hyfB, hyfC, hyfD, hyfE, hyfF, hyfG, hyfH, hyfI, hyfJ, hyfR, focB | |
RA | 2,662,004 | T→C | E43G (GAA→GGA) | iscR ← | DNA‑binding transcriptional dual regulator IscR |
RA | 2,756,138 | Δ1 bp | intergenic (+183/‑21) | ssrA → / → intA | tmRNA/CP4‑57 prophage; integrase |
MC JC | 2,756,160 | Δ35,091 bp | [intA]–[lhgO] | 33 genes [intA], yfjH, alpA, yfjI, yfjJ, abpB, abpA, yfjM, rnlA, rnlB, yfjP, yfjQ, yfjR, ypjK, yfjS, yfjT, yfjU, yfjV, yfjW, ypjI, yfjX, yfjY, ypjJ, yfjZ, ypjF, ypjA, pinH, ypjB, ypjC, ileY, ygaQ, csiD, [lhgO] |
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RA | 2,793,867 | C→A | A378D (GCT→GAT) | gabT → | 4‑aminobutyrate aminotransferase GabT |
MC JC | 2,798,370 | (TTC)4→3 | coding (124‑126/405 nt) | stpA ← | DNA‑binding transcriptional repressor StpA with RNA chaperone activity |
RA | 2,813,364 | T→C | V250A (GTC→GCC) | emrB → | multidrug efflux pump membrane subunit EmrB |
RA | 2,843,412 | C→T | R12H (CGT→CAT) | hycH ← | formate hydrogenlyase assembly protein |
MC JC | 2,846,301 | Δ20,968 bp | [hycE]–[rpoS] | 21 genes [hycE], hycD, hycC, hycB, hycA, hypA, hypB, hypC, hypD, hypE, fhlA, ygbA, mutS, pphB, ygbI, ygbJ, ygbK, ygbL, ygbM, ygbN, [rpoS] |
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MC JC | 2,994,992 | Δ3,877 bp | [ygeL]–ygeQ | [ygeL], ygeN, ygeO, insD‑4, insC‑4, ygeP, ygeQ | |
RA | 3,090,282 | C→T | intergenic (+30/‑65) | yggI → / → endA | conserved protein YggI/DNA‑specific endonuclease I |
RA | 3,090,341 | Δ1 bp | intergenic (+89/‑6) | yggI → / → endA | conserved protein YggI/DNA‑specific endonuclease I |
MC JC | 3,090,347 | Δ708 bp | coding (1‑708/708 nt) | endA → | DNA‑specific endonuclease I |
RA | 3,091,305 | A→G | S58G (AGC→GGC) | rsmE → | 16S rRNA m(3)U1498 methyltransferase |
RA | 3,093,157 | T→C | L74P (CTC→CCC) | yqgE → | DUF179 domain‑containing protein YqgE |
MC JC | 3,110,680 | 25702 bp→GA | [yghD]–pitB | 20 genes [yghD], yghE, yghF, yghG, pppA, yghJ, glcA, glcB, glcG, glcF, glcE, glcD, glcC, yghO, insH‑9, yghQ, yghR, yghS, yghT, pitB |
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MC JC | 3,184,782 | Δ6,916 bp | ubiK–yqiI | ubiK, ygiL, yqiG, insC‑5, insD‑5, yqiG, yqiH, yqiI | |
RA | 3,213,803 | T→C | S253P (TCT→CCT) | rpoD → | RNA polymerase, sigma 70 (sigma D) factor |
RA | 3,240,984 | (G)7→8 | coding (1041/1245 nt) | sstT → | serine/threonine:Na(+) symporter |
RA | 3,354,900 | T→A | L59* (TTA→TAA) | gltB → | glutamate synthase subunit GltB |
MC JC | 3,362,162 | Δ5,481 bp | [yhcA]–[yhcF] | [yhcA], yhcD, yhcE, insH‑10, yhcE, [yhcF] | |
MC JC | 3,453,928 | Δ15,926 bp | gspA–[chiA] | 16 genes gspA, gspC, gspD, gspE, gspF, gspG, gspH, gspI, gspJ, gspK, gspL, gspM, gspO, bfr, bfd, [chiA] |
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RA | 3,477,150 | C→T | K90K (AAG→AAA) | fkpA ← | peptidyl‑prolyl cis‑trans isomerase FkpA |
RA | 3,513,003 | A→G | D212D (GAT→GAC) | trpS ← | tryptophan‑‑tRNA ligase |
RA | 3,527,760 | A→G | N431S (AAC→AGC) | igaA → | inner membrane protein ‑ inhibits the Rcs signaling pathway |
MC JC | 3,581,139 | 3915 bp→6 bp | [yhhY]–yrhB | [yhhY], yhhZ, yrhA, insA‑6, insB‑6, yrhA, yrhD, yrhB | |
MC JC | 3,618,992 | Δ6,688 bp | rhsB–[yhhJ] | rhsB, yhhH, yhhI, [yhhJ] | |
MC JC | 3,651,293 | Δ2,422 bp | [yhiS]–yhiS | [yhiS], insH‑11, yhiS | |
RA | 3,720,597 | Δ1 bp | coding (4/153 nt) | hokA ← | small toxic polypeptide |
MC JC | 3,720,634 | Δ1,442 bp | IS150‑mediated | insJ–insK | insJ, insK |
MC JC | 3,761,993 | Δ8,250 bp | rhsA–yibV | rhsA, yibA, yibJ, yibG, yibS, yibV | |
RA | 3,801,078 | (T)7→6 | coding (922/1017 nt) | waaJ ← | UDP‑glucose:(glucosyl)LPS alpha‑1,2‑glucosyltransferase |
RA | 3,816,579 | G→A | intergenic (‑30/‑97) | rph ← / → yicC | truncated RNase PH/UPF0701 family protein YicC |
RA | 3,829,233 | C→A | L97M (CTG→ATG) | xanP → | xanthine:H(+) symporter XanP |
RA | 3,850,891 | G→A | Q68* (CAA→TAA) | ilvN ← | acetohydroxy acid synthase I subunit IlvN |
MC JC | 3,888,432 | Δ18,167 bp | tnaC–bglG | 17 genes tnaC, tnaA, tnaB, mdtL, yidZ, yieE, yieF, adeP, yieH, cbrB, cbrC, yieK, yieL, bglH, bglB, bglF, bglG |
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RA | 3,926,696 | C→T | G103D (GGC→GAC) | asnC ← | DNA‑binding transcriptional dual regulator AsnC |
RA | 3,948,805 | (G)6→7 | coding (1165/1521 nt) | yifB ← | putative magnesium chelatase YifB |
RA | 3,979,769 | C→T | A390V (GCG→GTG) | wzyE → | enterobacterial common antigen polymerase |
RA | 3,980,957 | (G)6→7 | coding (71/1386 nt) | yifK → | putative transporter YifK |
RA | 4,034,771 | C→T | A55V (GCT→GTT) | hemG → | protoporphyrinogen oxidase |
RA | 4,093,223 | A→G | V72V (GTT→GTC) | rhaM ← | L‑rhamnose mutarotase |
MC JC | 4,299,628 | Δ25,538 bp | [mdtP]–[phnC] | 27 genes [mdtP], mdtO, mdtN, ytcA, yjcS, alsK, alsE, alsC, alsA, alsB, alsR, rpiB, yjdP, phnP, phnO, phnN, phnM, phnL, phnK, phnJ, phnI, phnH, phnG, phnF, phnE, phnD, [phnC] |
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RA | 4,354,915 | G→A | intergenic (‑198/+39) | lysU ← / ← dtpC | lysine‑‑tRNA ligase/Ap4A synthetase/Ap3A synthetase/dipeptide/tripeptide:H(+) symporter DtpC |
RA | 4,438,124 | T→C | W140R (TGG→CGG) | ytfI → | protein YtfI |
RA | 4,485,906 | C→A | A16S (GCC→TCC) | pepA ← | aminopeptidase A/I |
MC JC | 4,496,676 | Δ53,036 bp | intB–fimH | 54 genes intB, insC‑6, insD‑6, yjgX, yjgZ, insG, yjhB, yjhC, ythA, yjhD, yjhE, insO, insI‑3, insO, insO, yjhV, fecE, fecD, fecC, fecB, fecA, fecR, fecI, insA‑7, yjhU, yjhF, yjhG, yjhH, yjhI, sgcR, sgcE, sgcA, ryjB, sgcQ, sgcC, sgcB, sgcX, yjhP, yjhQ, topAI, yjhZ, yjhR, nanS, nanM, nanC, fimB, fimE, fimA, fimI, fimC, fimD, fimF, fimG, fimH |
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MC JC | 4,555,491 | Δ41,523 bp | [yjiC]–lgoD | 37 genes [yjiC], ytiC, ytiD, idlP, iraD, hypT, iadA, yjiG, yjiH, kptA, yjiJ, yjiK, ytiA, yjiL, yjiM, yjiN, mdtM, rpnD, yjiR, yjiS, yjiT, yjiV, mcrC, mcrB, symE, symR, hsdS, hsdM, hsdR, mrr, yjiA, yjiX, btsT, tsr, lgoT, lgoR, lgoD |
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MC JC | 4,626,183 | (GCG)3→2 | coding (272‑274/1383 nt) | radA → | DNA recombination protein |
Unassigned missing coverage evidence | ||||||||||
---|---|---|---|---|---|---|---|---|---|---|
seq id | start | end | size | ←reads | reads→ | gene | description | |||
* | * | ÷ | NC_000913 | 380112 | 388670 | 8559 | 24 [0] | [6] 7 | [yaiO]–tauD | [yaiO],yaiX,insC‑1,insD‑1,yaiX,yaiP,ykiC,yaiS,tauA,tauB,tauC,tauD |
* | * | ÷ | NC_000913 | 2066216–2066301 | 2080591 | 14291–14376 | 9 [6] | [0] 23 | insH‑6–[yeeA] | insH‑6,yoeA,insD‑3,insC‑3,yoeA,yeeP,isrC,flu,yeeR,yeeS,yeeT,cbeA,cbtA,yeeW,yoeF,yeeX,[yeeA] |
* | * | ÷ | NC_000913 | 3423698–3424234 | 3428522–3424653 | 420–4825 | 8 [6] | [6] 8 | [rrfD]–[rrsD] | [rrfD],rrlD,alaU,ileU,[rrsD] |
Unassigned new junction evidence | |||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|
seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
* | ? | NC_000913 | = 226599 | NA (NA) | 24 (1.200) +GACGAATACCATT |
15/72 | 0.1 | NA | noncoding (841/2904 nt) | rrlH | 23S ribosomal RNA |
? | NC_000913 | 226613 = | NA (NA) | noncoding (855/2904 nt) | rrlH | 23S ribosomal RNA | |||||
* | ? | NC_000913 | = 380111 | 0 (0.000) | 20 (0.950) +CGAGATGGACG |
17/76 | 0.1 | 63.4% | coding (732/774 nt) | yaiO | outer membrane protein YaiO |
? | NC_000913 | 624576 = | 30 (1.090) | intergenic (‑66/‑309) | fepB/entC | ferric enterobactin ABC transporter periplasmic binding protein/isochorismate synthase EntC | |||||
* | ? | NC_000913 | = 2066304 | NA (NA) | 23 (0.840) | 21/98 | 0.1 | 100% | noncoding (1050/1195 nt) | IS5 | repeat region |
? | NC_000913 | 2080592 = | 0 (0.000) | intergenic (‑1/+197) | yeeA/sbmC | putative transporter YeeA/DNA gyrase inhibitor |