mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | position | mutation | freq | annotation | gene | description |
| RA | 34,112 | Δ1 bp | 100% | intergenic (+74/‑188) | carB → / → caiF | carbamoyl‑phosphate synthase large subunit/cai operon transcriptional activator |
| RA | 36,745 | C→T | 14.8% | P360P (CCG→CCA) | caiC ← | putative crotonobetaine/carnitine‑CoA ligase |
| RA | 36,758 | T→A | 15.6% | D356V (GAT→GTT) | caiC ← | putative crotonobetaine/carnitine‑CoA ligase |
| RA | 94,078 | G→A | 14.5% | G305S (GGC→AGC) | murE → | UDP‑N‑acetylmuramoyl‑L‑alanyl‑D‑glutamate:meso‑ diaminopimelate ligase |
| RA | 172,913 | G→A | 6.2% | M484I (ATG→ATA) | fhuB → | iron(3+)‑hydroxamate import ABC transporter permease |
| RA | 225,465 | A→C | 5.1% | intergenic (+8/‑35) | ileV → / → alaV | tRNA‑Ile/tRNA‑Ala |
| MC JC | 257,908 | Δ776 bp | 100% | [crl] | [crl] | |
| RA | 454,897 | C→T | 5.8% | intergenic (+108/‑236) | bolA → / → tig | stationary‑phase morphogene, transcriptional repressor for mreB; also regulator for dacA, dacC, and ampC/peptidyl‑prolyl cis/trans isomerase (trigger factor) |
| RA | 475,971 | C→G | 5.1% | intergenic (+20/+11) | ybaY → / ← ybaZ | outer membrane lipoprotein/excision repair protein, alkyltransferase‑like protein ATL |
| RA | 475,972 | C→G | 5.2% | intergenic (+21/+10) | ybaY → / ← ybaZ | outer membrane lipoprotein/excision repair protein, alkyltransferase‑like protein ATL |
| RA | 504,920 | T→C | 6.2% | L3L (TTA→CTA) | ushA → | bifunctional UDP‑sugar hydrolase/5'‑nucleotidase |
| RA | 563,387 | G→A | 13.0% | A20T (GCA→ACA) | sfmF → | FimA homolog, function unknown |
| RA | 698,817 | T→C | 5.3% | M121V (ATG→GTG) | asnB ← | asparagine synthetase B |
| RA | 839,105 | C→T | 6.5% | A35T (GCA→ACA) | ybiX ← | Fe(II)‑dependent oxygenase superfamily protein |
| RA | 849,632 | C→T | 15.0% | A156T (GCC→ACC) | rhtA ← | threonine and homoserine efflux system |
| RA | 885,311 | C→T | 10.7% | intergenic (‑81/+5) | ybjH ← / ← ybjI | uncharacterized protein/5‑amino‑6‑(5‑phospho‑D‑ribitylamino)uracil phosphatase; pyrimidine phosphatase; riboflavin synthesis |
| JC JC | 1,293,196 | IS5 (+) +4 bp | 7.3% | intergenic (‑274/‑328) | hns ← / → tdk | global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase |
| RA | 1,312,227 | A→G | 16.0% | V7A (GTC→GCC) | yciA ← | acyl‑CoA esterase |
| RA | 1,317,372 | C→T | 5.7% | A348A (GCG→GCA) | trpB ← | tryptophan synthase, beta subunit |
| RA | 1,411,675 | A→G | 5.5% | Y92H (TAT→CAT) | ttcA ← | tRNA s(2)C32 thioltransferase, iron sulfur cluster protein |
| RA | 1,449,050 | T→A | 5.1% | intergenic (+32/+26) | feaB → / ← tynA | phenylacetaldehyde dehydrogenase/tyramine oxidase, copper‑requiring |
| RA | 1,450,208 | C→T | 17.9% | G381D (GGC→GAC) | tynA ← | tyramine oxidase, copper‑requiring |
| RA | 1,472,757 | C→T | 6.6% | pseudogene (2241/3497 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,685,527 | A→G | 100% | G354G (GGT→GGC) | fumC ← | fumarate hydratase (fumarase C),aerobic Class II |
| RA | 1,733,449 | C→A | 11.7% | L1455M (CTG→ATG) | lhr → | putative ATP‑dependent helicase |
| RA | 1,757,688 | T→A | 5.7% | intergenic (+31/+33) | lpp → / ← ldtE | murein lipoprotein/murein L,D‑transpeptidase |
| RA | 1,812,089 | G→A | 14.3% | V386I (GTT→ATT) | ydjN → | putative transporter |
| RA | 1,864,766 | C→T | 18.2% | intergenic (+32/+16) | yeaD → / ← yeaE | D‑hexose‑6‑phosphate epimerase‑like protein/aldo‑keto reductase, methylglyoxal to acetol, NADPH‑dependent |
| JC | 1,926,052 | Δ8 bp | 5.4% | coding (613‑620/657 nt) | yobB → | C‑N hydrolase family protein |
| MC JC | 1,978,503 | Δ776 bp | 100% | insB1–insA | insB1, insA | |
| RA | 2,002,332 | A→G | 15.6% | R425R (CGT→CGC) | fliC ← | flagellar filament structural protein (flagellin) |
| RA | 2,145,313 | C→A | 100% | S683Y (TCC→TAC) | yegE → | putative diguanylate cyclase |
| RA | 2,173,361 | Δ2 bp | 100% | pseudogene (1‑2/442 nt) | gatC ← | pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC |
| RA | 2,181,599 | G→A | 15.3% | L168L (CTG→CTA) | yegV → | putative kinase |
| RA | 2,216,569 | G→A | 5.4% | A280V (GCG→GTG) | yehX ← | putative ABC transporter ATPase |
| RA | 2,288,873 | T→C | 5.7% | pseudogene (42/2525 nt) | yejO ← | pseudogene, autotransporter outer membrane homology;putative transport; Not classified; putative ATP‑binding component of a transport system |
| RA | 2,305,085 | A→G | 11.0% | intergenic (+692/+23) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,305,086 | C→G | 11.0% | intergenic (+693/+22) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,305,087 | C→T | 11.0% | intergenic (+694/+21) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,318,095 | C→G | 100% | L594F (TTG→TTC) | rcsC ← | hybrid sensory kinase in two‑component regulatory system with RcsB and YojN |
| RA | 2,673,034 | T→C | 13.6% | F330L (TTT→CTT) | hcaD → | phenylpropionate dioxygenase, ferredoxin reductase subunit |
| RA | 2,794,089 | A→G | 5.6% | intergenic (+74/‑164) | gabT → / → gabP | 4‑aminobutyrate aminotransferase, PLP‑dependent/gamma‑aminobutyrate transporter |
| RA | 2,823,581 | G→A | 5.2% | V63V (GTC→GTT) | recA ← | DNA recombination and repair protein; ssDNA‑dependent ATPase; synaptase; ssDNA and dsDNA binding protein; ATP‑dependent homologous DNA strand exchanger; recombinase A; LexA autocleavage cofactor |
| RA | 2,881,050 | T→C | 83.0% | intergenic (‑2/+1) | casD ← / ← casC | CRISP RNA (crRNA) containing Cascade antiviral complex protein/CRISP RNA (crRNA) containing Cascade antiviral complex protein |
| RA | 2,921,101 | T→C | 14.4% | M334V (ATG→GTG) | gudP ← | putative D‑glucarate transporter |
| RA | 2,966,582 | C→T | 5.9% | G618D (GGC→GAC) | ptsP ← | PEP‑protein phosphotransferase enzyme I; GAF domain containing protein |
| RA | 3,047,996 | G→A | 5.8% | A349V (GCC→GTC) | gcvP ← | glycine decarboxylase, PLP‑dependent, subunit P of glycine cleavage complex |
| RA | 3,156,590 | C→A | 5.3% | intergenic (+72/‑33) | yqhD → / → dkgA | aldehyde reductase, NADPH‑dependent/2,5‑diketo‑D‑gluconate reductase A |
| RA | 3,156,591 | T→G | 5.3% | intergenic (+73/‑32) | yqhD → / → dkgA | aldehyde reductase, NADPH‑dependent/2,5‑diketo‑D‑gluconate reductase A |
| RA | 3,222,725 | T→C | 17.7% | R31R (CGT→CGC) | ebgA → | evolved beta‑D‑galactosidase, alpha subunit |
| RA | 3,298,330 | T→C | 6.6% | N173D (AAC→GAC) | yraR ← | putative nucleoside‑diphosphate‑sugar epimerase |
| RA | 3,332,822 | G→A | 6.1% | intergenic (‑87/+40) | yhbE ← / ← rpmA | EamA family inner membrane putative transporter/50S ribosomal subunit protein L27 |
| RA | 3,332,823 | T→C | 6.1% | intergenic (‑88/+39) | yhbE ← / ← rpmA | EamA family inner membrane putative transporter/50S ribosomal subunit protein L27 |
| RA | 3,351,243 | A→G | 5.3% | Y595H (TAT→CAT) | arcB ← | aerobic respiration control sensor histidine protein kinase, cognate to two‑component response regulators ArcA and RssB |
| RA | 3,418,440 | T→C | 15.8% | C17C (TGT→TGC) | yhdV → | putative outer membrane protein |
| RA | 3,439,588 | G→C | 7.0% | intergenic (‑79/+28) | yhdN ← / ← rplQ | DUF1992 family protein/50S ribosomal subunit protein L17 |
| RA | 3,439,589 | G→C | 6.9% | intergenic (‑80/+27) | yhdN ← / ← rplQ | DUF1992 family protein/50S ribosomal subunit protein L17 |
| RA | 3,440,918 | T→C | 5.9% | T38A (ACT→GCT) | rpoA ← | RNA polymerase, alpha subunit |
| RA | 3,441,571 | T→C | 15.7% | E35E (GAA→GAG) | rpsD ← | 30S ribosomal subunit protein S4 |
| RA | 3,447,561 | G→A | 13.1% | N69N (AAC→AAT) | rplX ← | 50S ribosomal subunit protein L24 |
| RA | 3,501,017 | G→A | 6.0% | G370S (GGC→AGC) | frlA → | putative fructoselysine transporter |
| RA | 3,560,455:1 | +G | 100% | intergenic (‑2/+1) | glpR ← / ← glpR | pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon/pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon |
| RA | 3,781,051 | C→G | 5.1% | intergenic (+34/‑164) | lldD → / → trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| RA | 3,788,987 | T→C | 5.8% | V296A (GTT→GCT) | yibQ → | putative polysaccharide deacetylase |
| RA | 3,825,400 | T→C | 7.4% | V64A (GTG→GCG) | recG → | ATP‑dependent DNA helicase |
| RA | 3,959,515 | T→A | 5.7% | intergenic (+70/+17) | ilvC → / ← ppiC | ketol‑acid reductoisomerase, NAD(P)‑binding/peptidyl‑prolyl cis‑trans isomerase C (rotamase C) |
| RA | 3,991,679 | C→T | 100% | S176F (TCC→TTC) | cyaA → | adenylate cyclase |
| RA | 4,063,315 | A→G | 13.6% | S357G (AGC→GGC) | yihN → | MFS transporter family protein |
| RA | 4,117,060 | C→T | 86.2% | A55T (GCC→ACC) | glpK ← | glycerol kinase |
| RA | 4,117,123 | G→A | 15.0% | R34C (CGC→TGC) | glpK ← | glycerol kinase |
| RA | 4,130,060 | C→T | 15.1% | Q76* (CAA→TAA) | metL → | Bifunctional aspartokinase/homoserine dehydrogenase 2 |
| RA | 4,130,611 | A→C | 8.2% | E259D (GAA→GAC) | metL → | Bifunctional aspartokinase/homoserine dehydrogenase 2 |
| RA | 4,130,614 | G→T | 8.4% | L260L (CTG→CTT) | metL → | Bifunctional aspartokinase/homoserine dehydrogenase 2 |
| RA | 4,130,616 | C→A | 8.4% | A261E (GCG→GAG) | metL → | Bifunctional aspartokinase/homoserine dehydrogenase 2 |
| RA | 4,146,589 | A→G | 15.8% | D111G (GAC→GGC) | pflC → | putative [formate‑C‑acetyltransferase 2]‑activating enzyme; pyruvate formate‑lyase 1‑activating enzyme |
| RA | 4,147,260 | C→T | 5.8% | G41G (GGC→GGT) | frwD → | putative enzyme IIB component of PTS |
| RA | 4,183,876 | A→C | 5.2% | T878P (ACC→CCC) | rpoB → | RNA polymerase, beta subunit |
| RA | 4,184,803 | T→C | 15.3% | F1187L (TTC→CTC) | rpoB → | RNA polymerase, beta subunit |
| RA | 4,186,587 | A→G | 7.6% | D413G (GAC→GGC) | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,186,661 | G→A | 18.8% | E438K (GAA→AAA) | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,188,500 | G→A | 9.6% | D1051N (GAC→AAC) ‡ | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,188,501 | A→G | 19.2% | D1051G (GAC→GGC) ‡ | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,285,725 | A→G | 7.4% | G549G (GGT→GGC) | acs ← | acetyl‑CoA synthetase |
| RA | 4,296,060 | C→T | 22.4% | intergenic (+266/+376) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,296,380:1 | +CG | 100% | intergenic (+586/+56) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,356,445 | A→T | 5.0% | intergenic (‑34/+25) | dtpC ← / ← cadA | dipeptide and tripeptide permease/lysine decarboxylase, acid‑inducible |
| RA | 4,356,446 | A→T | 5.0% | intergenic (‑35/+24) | dtpC ← / ← cadA | dipeptide and tripeptide permease/lysine decarboxylase, acid‑inducible |
| RA | 4,366,855 | C→A | 5.1% | intergenic (‑82/+36) | dcuA ← / ← aspA | C4‑dicarboxylate antiporter/aspartate ammonia‑lyase |
| RA | 4,397,727:1 | +C | 100% | coding (316/1848 nt) | mutL → | methyl‑directed mismatch repair protein |
| RA | 4,450,950 | C→T | 5.7% | intergenic (+32/‑108) | ytfQ → / → ytfR | galactofuranose ABC transporter periplasmic binding protein/putative sugar ABC transporter ATPase |
| RA | 4,550,518 | T→C | 5.2% | N260S (AAC→AGC) | gntP ← | fructuronate transporter |
| RA | 4,608,861 | C→T | 15.7% | A72A (GCC→GCT) | yjjG → | dUMP phosphatase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3423732–3424551 | 3424551 | 1–820 | 476 [466] | [462] 468 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 16520 | NA (NA) | 182 (0.240) +CCC |
26/238 | NT | NA | noncoding (1134/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | 16521 = | NA (NA) | noncoding (1135/1345 nt) | IS186 | repeat region | |||||
| * | ? | NC_000913 | = 16653 | NA (NA) | 4 (0.010) | 4/244 | NT | NA | noncoding (1267/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | = 16691 | NA (NA) | noncoding (1305/1345 nt) | IS186 | repeat region | |||||
| * | ? | NC_000913 | = 20044 | NA (NA) | 6 (0.010) | 5/248 | NT | NA | noncoding (520/768 nt) | IS1 | repeat region |
| ? | NC_000913 | = 20084 | NA (NA) | noncoding (480/768 nt) | IS1 | repeat region | |||||
| * | ? | NC_000913 | = 39200 | NA (NA) | 16 (0.020) | 11/244 | NT | NA | noncoding (50/82 nt) | REP4 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP4 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | = 39232 | NA (NA) | noncoding (82/82 nt) | REP4 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP4 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | = 224007 | NA (NA) | 5 (0.010) | 3/250 | NT | NA | noncoding (237/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 224059 | NA (NA) | noncoding (289/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | 224957 = | NA (NA) | 6 (0.010) | 16/246 | NT | NA | noncoding (1187/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 224974 = | NA (NA) | noncoding (1204/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 225895 | NA (NA) | 57 (0.080) | 17/244 | NT | NA | noncoding (137/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 225899 | NA (NA) | noncoding (141/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 225998 | NA (NA) | 6 (0.010) | 5/250 | NT | NA | noncoding (240/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 226015 | NA (NA) | noncoding (257/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | 226704 = | NA (NA) | 14 (0.020) | 12/250 | NT | NA | noncoding (946/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 226730 = | NA (NA) | noncoding (972/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | 228057 = | NA (NA) | 5 (0.010) | 5/248 | NT | NA | noncoding (2299/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 228076 = | NA (NA) | noncoding (2318/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 228224 | NA (NA) | 11 (0.010) | 6/246 | NT | NA | noncoding (2466/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 228241 | NA (NA) | noncoding (2483/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 228241 | NA (NA) | 5 (0.010) | 4/250 | NT | NA | noncoding (2483/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 228262 | NA (NA) | noncoding (2504/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | 271017 = | NA (NA) | 4 (0.010) | 4/244 | NT | NA | noncoding (477/1221 nt) | IS30 | repeat region |
| ? | NC_000913 | 271039 = | NA (NA) | noncoding (499/1221 nt) | IS30 | repeat region | |||||
| * | ? | NC_000913 | 274038 = | NA (NA) | 6 (0.010) | 6/246 | NT | NA | noncoding (1112/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274083 = | NA (NA) | noncoding (1067/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 274347 = | NA (NA) | 3 (0.000) | 3/244 | NT | NA | noncoding (803/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274410 = | NA (NA) | noncoding (740/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 274531 | NA (NA) | 5 (0.010) | 3/244 | NT | NA | noncoding (619/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 274551 | NA (NA) | noncoding (599/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 274620 = | NA (NA) | 13 (0.020) | 4/240 | NT | NA | noncoding (530/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274663 = | NA (NA) | noncoding (487/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 274624 | NA (NA) | 3 (0.000) | 3/252 | NT | NA | noncoding (526/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 274693 | NA (NA) | noncoding (457/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 274695 | NA (NA) | 6 (0.010) | 4/250 | NT | NA | noncoding (455/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 274727 | NA (NA) | noncoding (423/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 277696 | NA (NA) | 6 (0.010) | 4/244 | NT | NA | noncoding (22/67 nt) | REP22 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP22 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | = 3330539 | NA (NA) | noncoding (80/98 nt) | RIP243 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP243 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | = 315646 | NA (NA) | 8 (0.010) | 7/248 | NT | NA | noncoding (418/1255 nt) | IS3 | repeat region |
| ? | NC_000913 | = 315665 | NA (NA) | noncoding (437/1255 nt) | IS3 | repeat region | |||||
| * | ? | NC_000913 | = 381669 | NA (NA) | 9 (0.010) | 9/244 | NT | NA | noncoding (410/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 381695 | NA (NA) | noncoding (436/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 381681 = | NA (NA) | 5 (0.010) | 4/240 | NT | NA | noncoding (422/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 381753 = | NA (NA) | noncoding (494/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 382237 = | NA (NA) | 5 (0.010) | 5/246 | NT | NA | noncoding (978/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 382267 = | NA (NA) | noncoding (1008/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 382282 = | NA (NA) | 6 (0.010) | 6/246 | NT | NA | noncoding (1023/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 382313 = | NA (NA) | noncoding (1054/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 382323 | NA (NA) | 5 (0.010) | 5/248 | NT | NA | noncoding (1064/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 382348 | NA (NA) | noncoding (1089/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 474269 = | NA (NA) | 9 (0.010) | 8/246 | NT | NA | intergenic (+17/+32) | amtB/tesB | ammonium transporter/acyl‑CoA thioesterase 2 |
| ? | NC_000913 | 474296 = | NA (NA) | intergenic (+44/+5) | amtB/tesB | ammonium transporter/acyl‑CoA thioesterase 2 | |||||
| * | ? | NC_000913 | 632065 = | NA (NA) | 22 (0.030) | 15/248 | NT | NA | intergenic (+66/‑117) | cstA/ybdD | carbon starvation protein involved in peptide utilization; APC peptide transporter family protein/DUF466 family protein |
| ? | NC_000913 | 632088 = | NA (NA) | intergenic (+89/‑94) | cstA/ybdD | carbon starvation protein involved in peptide utilization; APC peptide transporter family protein/DUF466 family protein | |||||
| * | ? | NC_000913 | = 819757 | NA (NA) | 5 (0.010) | 5/246 | NT | NA | intergenic (+10/‑127) | moaE/ybhL | molybdopterin synthase, large subunit/putative acetate transporter; BAX Inhibitor‑1 family inner membrane protein |
| ? | NC_000913 | = 819784 | NA (NA) | noncoding (27/27 nt) | REP74 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP74 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||
| * | ? | NC_000913 | = 1040546 | NA (NA) | 11 (0.020) | 9/238 | NT | NA | noncoding (4/36 nt) | REP89 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP89 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | = 1040578 | NA (NA) | noncoding (36/36 nt) | REP89 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP89 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||
| * | ? | NC_000913 | 1097426 = | NA (NA) | 17 (0.020) | 10/254 | NT | 10.0% | intergenic (+597/+139) | ycdU/serX | putative inner membrane protein/tRNA‑Ser |
| ? | NC_000913 | 1097455 = | 155 (0.200) | intergenic (+626/+110) | ycdU/serX | putative inner membrane protein/tRNA‑Ser | |||||
| * | ? | NC_000913 | = 1117875 | NA (NA) | 7 (0.010) | 6/238 | NT | NA | noncoding (8/21 nt) | REP99 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP99 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | = 1117880 | NA (NA) | noncoding (13/21 nt) | REP99 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP99 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||
| * | ? | NC_000913 | 1207790 = | 332 (0.420) | 466 (0.680) | 167/226 | NT | 60.8% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 311 (0.450) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 321 (0.410) | 355 (0.510) | 149/226 | NT | 54.5% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 311 (0.450) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1299498 | 1 (0.000) | 742 (0.970) | 219/250 | NT | 99.9% | intergenic (+253/‑1684) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein |
| ? | NC_000913 | 1300698 = | 0 (0.000) | intergenic (+1453/‑484) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | 1396531 = | NA (NA) | 9 (0.010) | 7/246 | NT | NA | noncoding (488/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 1428264 | NA (NA) | noncoding (531/1196 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 2408797 | NA (NA) | 18 (0.020) | 11/242 | NT | NA | noncoding (6/19 nt) | REP167 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP167 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | = 2408804 | NA (NA) | noncoding (13/19 nt) | REP167 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP167 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||
| * | ? | NC_000913 | 2440343 = | NA (NA) | 12 (0.020) | 11/246 | NT | NA | noncoding (1/36 nt) | REP170 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP170 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | 2440375 = | NA (NA) | noncoding (33/36 nt) | REP170 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP170 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||
| * | ? | NC_000913 | = 2539674 | NA (NA) | 16 (0.020) | 13/244 | NT | NA | intergenic (‑91/+43) | cysM/cysA | cysteine synthase B (O‑acetylserine sulfhydrolase B)/sulfate/thiosulfate transporter subunit |
| ? | NC_000913 | = 2539688 | NA (NA) | intergenic (‑105/+29) | cysM/cysA | cysteine synthase B (O‑acetylserine sulfhydrolase B)/sulfate/thiosulfate transporter subunit | |||||
| * | ? | NC_000913 | 2726200 = | NA (NA) | 104 (0.140) | 14/246 | NT | NA | intergenic (‑12/+81) | rrfG/rrlG | 5S ribosomal RNA of rrnG operon/23S ribosomal RNA of rrnG operon |
| ? | NC_000913 | 2726224 = | NA (NA) | intergenic (‑36/+57) | rrfG/rrlG | 5S ribosomal RNA of rrnG operon/23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | 2727891 = | NA (NA) | 91 (0.120) | 18/246 | NT | NA | noncoding (1294/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| ? | NC_000913 | 2727910 = | NA (NA) | noncoding (1275/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | = 2729043 | NA (NA) | 47 (0.060) | 21/244 | NT | NA | noncoding (142/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| ? | NC_000913 | = 2729047 | NA (NA) | noncoding (138/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | 2729443 = | 306 (0.390) | 25 (0.030) | 12/238 | NT | 7.4% | noncoding (2/76 nt) | gltW | tRNA‑Glu |
| ? | NC_000913 | 2729485 = | 345 (0.480) | intergenic (‑41/+131) | gltW/rrsG | tRNA‑Glu/16S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | 2729630 = | NA (NA) | 64 (0.080) | 23/248 | NT | NA | noncoding (1528/1542 nt) | rrsG | 16S ribosomal RNA of rrnG operon |
| ? | NC_000913 | 2729652 = | NA (NA) | noncoding (1506/1542 nt) | rrsG | 16S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | 2730003 = | NA (NA) | 4 (0.010) | 3/244 | NT | NA | noncoding (1155/1542 nt) | rrsG | 16S ribosomal RNA of rrnG operon |
| ? | NC_000913 | 2730041 = | NA (NA) | noncoding (1117/1542 nt) | rrsG | 16S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | 3269713 = | NA (NA) | 6 (0.010) +TT |
8/254 | NT | NA | intergenic (+111/+503) | yhaC/rnpB | pentapetide repeats‑related protein/RNase P, M1 RNA component |
| ? | NC_000913 | = 4137924 | NA (NA) | intergenic (‑267/+8) | yijF/gldA | DUF1287 family protein/glycerol dehydrogenase, NAD+ dependent; 1,2‑propanediol:NAD+ oxidoreductase | |||||
| * | ? | NC_000913 | = 3277814 | NA (NA) | 4 (0.010) | 4/242 | NT | NA | intergenic (+13/+42) | yhaV/agaR | toxin of the SohB(PrlF)‑YhaV toxin‑antitoxin system/transcriptional repressor of the aga regulon |
| ? | NC_000913 | = 3277847 | NA (NA) | noncoding (29/29 nt) | REP238 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP238 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||
| * | ? | NC_000913 | = 3592644 | NA (NA) | 11 (0.010) | 9/244 | NT | NA | noncoding (81/99 nt) | RIP258 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP258 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913 | = 3592655 | NA (NA) | noncoding (92/99 nt) | RIP258 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP258 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | 3598397 = | NA (NA) | 16 (0.020) | 10/244 | NT | NA | noncoding (1/99 nt) | RIP259 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP259 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913 | 3598422 = | NA (NA) | noncoding (26/99 nt) | RIP259 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP259 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | 3619281 = | NA (NA) | 3 (0.000) | 3/236 | NT | NA | coding (90/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | 3619462 = | NA (NA) | coding (271/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | 3620057 = | NA (NA) | 30 (0.040) | 13/246 | NT | 100% | coding (866/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | 3620067 = | 0 (0.000) | coding (876/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | = 3620112 | NA (NA) | 8 (0.010) | 7/246 | NT | 100% | coding (921/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | = 3620151 | 0 (0.000) | coding (960/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | 3620119 = | NA (NA) | 4 (0.010) | 4/246 | NT | 100% | coding (928/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | 3620146 = | 0 (0.000) | coding (955/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | = 3620562 | NA (NA) | 16 (0.020) | 11/246 | NT | 100% | coding (1371/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | = 3620587 | 0 (0.000) | coding (1396/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | 3620569 = | NA (NA) | 23 (0.030) | 11/246 | NT | 100% | coding (1378/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | 3620582 = | 0 (0.000) | coding (1391/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | 3620621 = | NA (NA) | 26 (0.030) | 12/246 | NT | 100% | coding (1430/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | 3620630 = | 0 (0.000) | coding (1439/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | 3621402 = | NA (NA) | 20 (0.030) | 11/246 | NT | 100% | coding (2211/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | 3621407 = | 0 (0.000) | coding (2216/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | = 3621502 | NA (NA) | 6 (0.010) | 4/250 | NT | 100% | coding (2311/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | = 3621532 | 0 (0.000) | coding (2341/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | = 3621980 | NA (NA) | 3 (0.000) | 3/242 | NT | 100% | coding (2789/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | = 3622019 | 0 (0.000) | coding (2828/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | 3622466 = | NA (NA) | 25 (0.030) | 7/250 | NT | 6.2% | coding (3275/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | 3622497 = | 390 (0.500) | coding (3306/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | 3650712 = | NA (NA) | 15 (0.020) | 12/244 | NT | NA | noncoding (1/100 nt) | RIP262 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP262 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913 | 3650744 = | NA (NA) | noncoding (33/100 nt) | RIP262 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP262 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | 3721045 = | 992 (1.260) | 1894 (2.420) | 248/256 | NT | 68.8% | noncoding (413/1443 nt) | IS150 | repeat region |
| ? | NC_000913 | = 3839774 | 730 (0.930) | coding (220/819 nt) | nlpA | cytoplasmic membrane lipoprotein‑28 | |||||
| * | ? | NC_000913 | 3740982 = | NA (NA) | 25 (0.030) | 12/244 | NT | NA | noncoding (19/98 nt) | RIP269 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP269 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913 | = 4128041 | NA (NA) | noncoding (90/97 nt) | RIP305 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP305 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | 3754811 = | NA (NA) | 4 (0.010) | 4/242 | NT | NA | intergenic (‑383/+162) | yiaW/aldB | DUF3302 family inner membrane protein/aldehyde dehydrogenase B |
| ? | NC_000913 | 3754851 = | NA (NA) | intergenic (‑423/+122) | yiaW/aldB | DUF3302 family inner membrane protein/aldehyde dehydrogenase B | |||||
| * | ? | NC_000913 | = 3764228 | 0 (0.000) | 10 (0.010) | 8/248 | NT | 100% | coding (2046/4134 nt) | rhsA | Rhs protein with putative toxin 55 domain; putative polysaccharide synthesis/export protein; putative neighboring cell growth inhibitor |
| ? | NC_000913 | = 3764260 | NA (NA) | coding (2078/4134 nt) | rhsA | Rhs protein with putative toxin 55 domain; putative polysaccharide synthesis/export protein; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | = 3777134 | NA (NA) | 24 (0.030) | 24/240 | NT | NA | intergenic (+107/‑265) | yibL/lldP | ribosome‑associated DUF2810 family protein/L‑lactate permease |
| ? | NC_000913 | = 3777146 | NA (NA) | intergenic (+119/‑253) | yibL/lldP | ribosome‑associated DUF2810 family protein/L‑lactate permease | |||||
| * | ? | NC_000913 | = 3827429 | NA (NA) | 11 (0.010) | 9/244 | NT | NA | intergenic (+138/+31) | recG/gltS | ATP‑dependent DNA helicase/glutamate transporter |
| ? | NC_000913 | = 3827451 | NA (NA) | intergenic (+160/+9) | recG/gltS | ATP‑dependent DNA helicase/glutamate transporter | |||||
| * | ? | NC_000913 | = 3943554 | 120 (0.150) | 8 (0.010) | 6/236 | NT | 6.8% | intergenic (+44/‑150) | gltU/rrlC | tRNA‑Glu/23S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 3943572 | NA (NA) | intergenic (+62/‑132) | gltU/rrlC | tRNA‑Glu/23S ribosomal RNA of rrnC operon | |||||
| * | ? | NC_000913 | 4037399 = | NA (NA) | 33 (0.040) | 3/254 | NT | 42.7% | intergenic (+64/‑120) | alaT/rrlA | tRNA‑Ala/23S ribosomal RNA of rrnA operon |
| ? | NC_000913 | 4209883 = | 45 (0.060) | intergenic (+34/‑160) | gltV/rrlE | tRNA‑Glu/23S ribosomal RNA of rrnE operon | |||||
| * | ? | NC_000913 | = 4040683 | 525 (0.670) | 92 (0.120) | 18/254 | NT | 13.3% | intergenic (+47/+223) | rrfA/mobB | 5S ribosomal RNA of rrnA operon/molybdopterin‑guanine dinucleotide biosynthesis protein B |
| ? | NC_000913 | = 4213162 | 684 (0.880) | intergenic (+3/‑72) | rrfE/yjaA | 5S ribosomal RNA of rrnE operon/stress‑induced protein | |||||
| * | ? | NC_000913 | = 4080117 | NA (NA) | 6 (0.010) | 5/244 | NT | NA | noncoding (98/98 nt) | REP297 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP297 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | 4618142 = | NA (NA) | noncoding (26/82 nt) | REP353 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP353 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | = 4171761 | 584 (0.740) | 75 (0.100) +TAG |
16/252 | NT | 9.9% | intergenic (+5/‑296) | rrfB/murB | 5S ribosomal RNA of rrnB operon/UDP‑N‑acetylenolpyruvoylglucosamine reductase, FAD‑binding |
| ? | NC_000913 | = 4213198 | 813 (1.030) | intergenic (+39/‑36) | rrfE/yjaA | 5S ribosomal RNA of rrnE operon/stress‑induced protein | |||||
| * | ? | NC_000913 | 4295835 = | NA (NA) | 23 (0.030) | 13/244 | NT | NA | noncoding (1/600 nt) | RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites | RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites |
| ? | NC_000913 | 4295868 = | NA (NA) | noncoding (34/600 nt) | RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites | RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites | |||||
| * | ? | NC_000913 | 4373197 = | NA (NA) | 15 (0.020) | 9/244 | NT | NA | noncoding (1/99 nt) | RIP328 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP328 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913 | 4373222 = | NA (NA) | noncoding (26/99 nt) | RIP328 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP328 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | 4374498 = | NA (NA) | 8 (0.010) | 7/244 | NT | NA | noncoding (1/99 nt) | RIP329 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP329 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913 | 4374528 = | NA (NA) | noncoding (31/99 nt) | RIP329 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP329 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||