mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.29.0 revision 8f9c342918e4
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | position | mutation | freq | annotation | gene | description |
| RA | 263,172 | A→C | 100% | pseudogene (41/63 nt) | ykfN ← | pseudogene, YdiA family |
| RA | 595,519 | T→A | 18.9% | intergenic (‑76/‑81) | cusR ← / → cusC | response regulator in two‑component regulatory system with CusS/copper/silver efflux system, outer membrane component |
| RA | 595,520 | T→A | 19.0% | intergenic (‑77/‑80) | cusR ← / → cusC | response regulator in two‑component regulatory system with CusS/copper/silver efflux system, outer membrane component |
| RA | 721,004 | T→A | 15.0% | intergenic (+164/+52) | ybfK → / ← kdpE | uncharacterized protein/response regulator in two‑component regulatory system with KdpD |
| RA | 721,006 | T→A | 15.3% | intergenic (+166/+50) | ybfK → / ← kdpE | uncharacterized protein/response regulator in two‑component regulatory system with KdpD |
| RA | 721,009 | T→A | 15.3% | intergenic (+169/+47) | ybfK → / ← kdpE | uncharacterized protein/response regulator in two‑component regulatory system with KdpD |
| RA | 756,180 | G→T | 100% | G92W (GGG→TGG) | sdhA → | succinate dehydrogenase, flavoprotein subunit |
| JC JC | 1,426,494 | IS2 (+) +5 bp | 15.3% | pseudogene (41‑45/933 nt) | tmpR → | Rac prophage; pseudogene, tail protein family;Phage or Prophage Related; putative alpha helix protein |
| RA | 1,620,224 | C→G | 15.0% | intergenic (+17/+14) | marB → / ← eamA | periplasmic mar operon regulator/cysteine and O‑acetyl‑L‑serine efflux system |
| RA | 1,756,553 | A→T | 100% | K286* (AAA→TAA) | pykF → | pyruvate kinase I |
| RA | 1,914,888 | T→G | 100% | Q216P (CAG→CCG) | proQ ← | RNA chaperone, putative ProP translation regulator |
| RA | 1,950,296:1 | +C | 15.8% | coding (227/1773 nt) | aspS ← | aspartyl‑tRNA synthetase |
| RA | 1,950,302 | Δ1 bp | 15.1% | coding (221/1773 nt) | aspS ← | aspartyl‑tRNA synthetase |
| RA | 1,977,224:1 | +A | 16.4% | intergenic (‑85/+42) | motA ← / ← flhC | proton conductor component of flagella motor/flagellar class II regulon transcriptional activator, with FlhD |
| RA | 1,977,227 | T→A | 16.6% | intergenic (‑88/+39) | motA ← / ← flhC | proton conductor component of flagella motor/flagellar class II regulon transcriptional activator, with FlhD |
| RA | 1,977,231 | Δ1 bp | 16.6% | intergenic (‑92/+35) | motA ← / ← flhC | proton conductor component of flagella motor/flagellar class II regulon transcriptional activator, with FlhD |
| JC JC | 1,979,486 | IS5 (+) +4 bp | 100% | intergenic (‑271/‑264) | insA ← / → uspC | IS1 repressor TnpA/universal stress protein |
| RA | 2,173,363 | Δ2 bp | 100% | intergenic (‑1/+1) | gatC ← / ← gatC | pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC/pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC |
| RA | 2,366,010:1 | +T | 16.2% | coding (83/1140 nt) | arnB → | uridine 5'‑(beta‑1‑threo‑pentapyranosyl‑4‑ulose diphosphate) aminotransferase, PLP‑dependent |
| RA | 2,366,015 | Δ1 bp | 16.5% | coding (88/1140 nt) | arnB → | uridine 5'‑(beta‑1‑threo‑pentapyranosyl‑4‑ulose diphosphate) aminotransferase, PLP‑dependent |
| RA | 2,390,012 | Δ1 bp | 16.3% | intergenic (+48/+36) | yfbP → / ← nuoN | TPR‑like repeats‑containing protein/NADH:ubiquinone oxidoreductase, membrane subunit N |
| RA | 2,390,016:1 | +C | 17.2% | intergenic (+52/+32) | yfbP → / ← nuoN | TPR‑like repeats‑containing protein/NADH:ubiquinone oxidoreductase, membrane subunit N |
| RA | 2,483,900 | T→A | 15.6% | V49D (GTC→GAC) | evgA → | response regulator in two‑component regulatory system with EvgS |
| RA | 2,483,906 | T→A | 15.6% | I51N (ATT→AAT) | evgA → | response regulator in two‑component regulatory system with EvgS |
| RA | 2,483,912 | T→A | 15.9% | V53D (GTC→GAC) | evgA → | response regulator in two‑component regulatory system with EvgS |
| RA | 2,707,320 | A→T | 19.7% | intergenic (‑196/+2) | lepA ← / ← rseC | back‑translocating elongation factor EF4, GTPase/SoxR iron‑sulfur cluster reduction factor component |
| RA | 2,707,321 | A→T | 19.8% | intergenic (‑197/+1) | lepA ← / ← rseC | back‑translocating elongation factor EF4, GTPase/SoxR iron‑sulfur cluster reduction factor component |
| RA | 2,814,174 | T→A | 17.4% | intergenic (+20/+44) | emrB → / ← luxS | multidrug efflux system protein/S‑ribosylhomocysteine lyase |
| RA | 2,814,175 | T→A | 17.1% | intergenic (+21/+43) | emrB → / ← luxS | multidrug efflux system protein/S‑ribosylhomocysteine lyase |
| RA | 3,156,590 | C→A | 15.1% | intergenic (+72/‑33) | yqhD → / → dkgA | aldehyde reductase, NADPH‑dependent/2,5‑diketo‑D‑gluconate reductase A |
| RA | 3,171,852 | C→T | 17.2% | intergenic (+19/+27) | qseC → / ← ygiZ | quorum sensing sensory histidine kinase in two‑component regulatory system with QseB/inner membrane protein |
| RA | 3,171,857 | A→T | 17.6% | intergenic (+24/+22) | qseC → / ← ygiZ | quorum sensing sensory histidine kinase in two‑component regulatory system with QseB/inner membrane protein |
| RA | 3,171,858 | A→T | 17.6% | intergenic (+25/+21) | qseC → / ← ygiZ | quorum sensing sensory histidine kinase in two‑component regulatory system with QseB/inner membrane protein |
| RA | 3,171,863 | A→G | 17.2% | intergenic (+30/+16) | qseC → / ← ygiZ | quorum sensing sensory histidine kinase in two‑component regulatory system with QseB/inner membrane protein |
| RA | 3,183,345:1 | +T | 16.0% | intergenic (+22/+468) | zupT → / ← ribB | zinc transporter/3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase |
| RA | 3,247,894 | G→T | 16.7% | G41V (GGC→GTC) | yqjA → | general envelope maintenance protein; DedA family inner membrane protein; putative multidrug efflux transporter |
| RA | 3,248,104 | Δ1 bp | 15.2% | coding (332/663 nt) | yqjA → | general envelope maintenance protein; DedA family inner membrane protein; putative multidrug efflux transporter |
| RA | 3,338,928 | C→A | 100% | L107F (TTG→TTT) | mlaE ← | ABC transporter maintaining OM lipid asymmetry, inner membrane permease protein |
| 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 | 3,657,599 | T→A | 18.1% | intergenic (+32/‑767) | hdeD → / → gadE | acid‑resistance membrane protein/gad regulon transcriptional activator |
| RA | 3,657,601 | G→C | 18.1% | intergenic (+34/‑765) | hdeD → / → gadE | acid‑resistance membrane protein/gad regulon transcriptional activator |
| RA | 3,657,603 | T→A | 18.4% | intergenic (+36/‑763) | hdeD → / → gadE | acid‑resistance membrane protein/gad regulon transcriptional activator |
| RA | 3,684,604 | G→A | 100% | Q339* (CAG→TAG) | yhjK ← | cyclic‑di‑GMP phosphodiesterase |
| RA | 3,705,970 | G→A | 25.8% | intergenic (‑180/+128) | dppB ← / ← dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| RA | 3,705,971 | C→A | 26.2% | intergenic (‑181/+127) | dppB ← / ← dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| RA | 3,705,984 | T→G | 32.6% | intergenic (‑194/+114) | dppB ← / ← dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| RA | 3,705,985 | T→C | 32.6% | intergenic (‑195/+113) | dppB ← / ← dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| RA | 3,790,300 | A→T | 16.5% | intergenic (‑219/+20) | waaH ← / ← tdh | LPS(HepIII)‑glucuronic acid glycosyltransferase/L‑threonine 3‑dehydrogenase, NAD(P)‑binding |
| RA | 3,790,303 | A→T | 17.0% | intergenic (‑222/+17) | waaH ← / ← tdh | LPS(HepIII)‑glucuronic acid glycosyltransferase/L‑threonine 3‑dehydrogenase, NAD(P)‑binding |
| RA | 3,815,816 | C→G | 15.3% | intergenic (‑48/+18) | pyrE ← / ← rph | orotate phosphoribosyltransferase/ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH |
| RA | 3,815,819 | C→G | 15.4% | intergenic (‑51/+15) | pyrE ← / ← rph | orotate phosphoribosyltransferase/ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH |
| MC JC | 3,815,859 | Δ82 bp | 100% | [rph]–[rph] | [rph], [rph] | |
| RA | 4,189,448 | C→T | 100% | Q1367* (CAG→TAG) | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,296,060 | C→T | 31.5% | intergenic (+266/+376) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,296,381:1 | +GC | 100% | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,335,654 | T→A | 15.7% | intergenic (‑64/+40) | eptA ← / ← adiC | lipid A phosphoethanolamine transferase/arginine:agmatine antiporter |
| RA | 4,335,655 | T→A | 16.6% | intergenic (‑65/+39) | eptA ← / ← adiC | lipid A phosphoethanolamine transferase/arginine:agmatine antiporter |
| RA | 4,400,313 | A→C | 100% | D9A (GAT→GCT) | hfq → | global sRNA chaperone; HF‑I, host factor for RNA phage Q beta replication |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 16653 | NA (NA) | 27 (0.210) | 8/164 | NT | NA | noncoding (1267/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | = 16691 | NA (NA) | noncoding (1305/1345 nt) | IS186 | repeat region | |||||
| * | ? | NC_000913 | = 213635 | NA (NA) | 10 (0.080) | 7/164 | NT | NA | noncoding (4/37 nt) | REP15 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP15 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | = 213668 | NA (NA) | noncoding (37/37 nt) | REP15 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP15 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||
| * | ? | NC_000913 | 224572 = | NA (NA) | 6 (0.040) | 5/170 | NT | NA | noncoding (802/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 224598 = | NA (NA) | noncoding (828/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 225281 | NA (NA) | 44 (0.330) | 15/168 | NT | NA | noncoding (1511/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 225293 | NA (NA) | noncoding (1523/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 225544 | NA (NA) | 9 (0.070) | 8/170 | NT | NA | noncoding (45/76 nt) | alaV | tRNA‑Ala |
| ? | NC_000913 | = 225567 | NA (NA) | noncoding (68/76 nt) | alaV | tRNA‑Ala | |||||
| * | ? | NC_000913 | = 225755 | 127 (0.910) | 23 (0.170) | 6/170 | NT | 17.2% | intergenic (+180/‑4) | alaV/rrlH | tRNA‑Ala/23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 2729217 = | 100 (0.750) | intergenic (‑33/+152) | rrlG/gltW | 23S ribosomal RNA of rrnG operon/tRNA‑Glu | |||||
| * | ? | NC_000913 | 225889 = | NA (NA) | 35 (0.270) | 14/164 | NT | NA | noncoding (131/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 225907 = | NA (NA) | noncoding (149/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 225998 | NA (NA) | 28 (0.210) | 14/170 | 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) | 9 (0.070) | 5/170 | 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 | = 227444 | NA (NA) | 30 (0.230) | 13/168 | NT | NA | noncoding (1686/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 227459 | NA (NA) | noncoding (1701/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | 228016 = | NA (NA) | 33 (0.260) | 14/164 | NT | NA | noncoding (2258/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 228041 = | NA (NA) | noncoding (2283/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 228108 | NA (NA) | 38 (0.280) | 17/170 | NT | NA | noncoding (2350/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 228124 | NA (NA) | noncoding (2366/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 228224 | NA (NA) | 18 (0.140) | 7/166 | 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 | = 257907 | 0 (0.000) | 124 (0.970) | 73/162 | NT | 100% | intergenic (+8/‑769) | crl/crl | pseudogene, sigma factor‑binding protein, RNA polymerase holoenzyme formation stimulator;regulator; Surface structures; transcriptional regulator of cryptic csgA gene for curli surface fibers/pseudogene, sigma factor‑binding protein, RNA polymerase holoenzyme formation stimulator;regulator; Surface structures; transcriptional regulator of cryptic csgA gene for curli surface fibers |
| ? | NC_000913 | 258684 = | 0 (0.000) | pseudogene (9/331 nt) | crl | pseudogene, sigma factor‑binding protein, RNA polymerase holoenzyme formation stimulator;regulator; Surface structures; transcriptional regulator of cryptic csgA gene for curli surface fibers | |||||
| * | ? | NC_000913 | 274347 = | NA (NA) | 21 (0.160) | 9/164 | NT | NA | noncoding (803/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274410 = | NA (NA) | noncoding (740/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 274384 = | NA (NA) | 14 (0.100) | 5/172 | NT | NA | noncoding (766/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274422 = | NA (NA) | noncoding (728/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 274525 = | NA (NA) | 6 (0.050) | 5/164 | NT | NA | noncoding (625/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274559 = | NA (NA) | noncoding (591/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 274620 = | NA (NA) | 11 (0.090) | 7/160 | NT | NA | noncoding (530/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274663 = | NA (NA) | noncoding (487/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 274965 = | NA (NA) | 27 (0.200) | 14/172 | NT | NA | noncoding (185/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274991 = | NA (NA) | noncoding (159/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 277706 | NA (NA) | 10 (0.080) | 8/164 | NT | NA | noncoding (32/67 nt) | REP22 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP22 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | = 277737 | NA (NA) | noncoding (63/67 nt) | REP22 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP22 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | = 315572 | NA (NA) | 14 (0.110) | 5/158 | NT | NA | noncoding (344/1255 nt) | IS3 | repeat region |
| ? | NC_000913 | = 315588 | NA (NA) | noncoding (360/1255 nt) | IS3 | repeat region | |||||
| * | ? | NC_000913 | = 315646 | NA (NA) | 29 (0.220) | 14/168 | NT | NA | noncoding (418/1255 nt) | IS3 | repeat region |
| ? | NC_000913 | = 315665 | NA (NA) | noncoding (437/1255 nt) | IS3 | repeat region | |||||
| * | ? | NC_000913 | = 316201 | NA (NA) | 24 (0.190) | 11/160 | NT | NA | noncoding (973/1255 nt) | IS3 | repeat region |
| ? | NC_000913 | = 316220 | NA (NA) | noncoding (992/1255 nt) | IS3 | repeat region | |||||
| * | ? | NC_000913 | = 354733 | NA (NA) | 10 (0.080) | 8/164 | NT | NA | noncoding (135/171 nt) | REP26 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP26 (repetitive extragenic palindromic) element; contains 4 REP sequences |
| ? | NC_000913 | = 354765 | NA (NA) | noncoding (167/171 nt) | REP26 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP26 (repetitive extragenic palindromic) element; contains 4 REP sequences | |||||
| * | ? | NC_000913 | 381663 = | NA (NA) | 27 (0.210) | 10/164 | NT | NA | noncoding (404/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 381703 = | NA (NA) | noncoding (444/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 381669 | NA (NA) | 42 (0.330) | 15/164 | NT | NA | noncoding (410/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 381695 | NA (NA) | noncoding (436/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 381819 = | NA (NA) | 32 (0.250) | 14/164 | NT | NA | noncoding (560/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 381841 = | NA (NA) | noncoding (582/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 381910 | NA (NA) | 37 (0.280) | 10/166 | NT | NA | noncoding (651/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 381923 | NA (NA) | noncoding (664/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 382110 = | NA (NA) | 14 (0.110) | 6/168 | NT | NA | noncoding (851/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 382141 = | NA (NA) | noncoding (882/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 382282 = | NA (NA) | 12 (0.090) | 9/166 | NT | NA | noncoding (1023/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 382313 = | NA (NA) | noncoding (1054/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 385205 | 127 (0.910) | 25 (0.200) | 12/162 | NT | 16.9% | intergenic (‑589/‑27) | yaiS/tauA | putative PIG‑L family deacetylase/taurine ABC transporter periplasmic binding protein |
| ? | NC_000913 | = 385217 | 130 (1.020) | intergenic (‑601/‑15) | yaiS/tauA | putative PIG‑L family deacetylase/taurine ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | = 409055 | NA (NA) | 18 (0.140) | 9/164 | NT | NA | noncoding (4/37 nt) | REP34 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP34 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | = 409088 | NA (NA) | noncoding (37/37 nt) | REP34 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP34 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||
| * | ? | NC_000913 | 409056 = | NA (NA) | 10 (0.080) | 7/164 | NT | NA | noncoding (5/37 nt) | REP34 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP34 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | 409089 = | NA (NA) | intergenic (+139/+19) | ykiA/rdgC | pseudogene/nucleoid‑associated ssDNA and dsDNA binding protein; competitive inhibitor of RecA function | |||||
| * | ? | NC_000913 | 489959 = | NA (NA) | 8 (0.060) | 5/164 | NT | NA | noncoding (1/98 nt) | RIP43 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP43 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913 | 3547917 = | NA (NA) | noncoding (31/87 nt) | REP254 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP254 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | 526259 = | NA (NA) | 7 (0.050) | 4/168 | NT | 100% | coding (2999/4281 nt) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | 526275 = | 0 (0.000) | coding (3015/4281 nt) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | = 566841 | 31 (0.220) | 15 (0.110) | 9/166 | NT | 21.1% | noncoding (65/1258 nt) | IS3 | repeat region |
| ? | NC_000913 | 1095469 = | 83 (0.640) | noncoding (34/1258 nt) | IS3 | repeat region | |||||
| * | ? | NC_000913 | = 730045 | NA (NA) | 13 (0.100) | 8/168 | NT | NA | coding (463/4194 nt) | rhsC | Rhs protein with putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | = 730067 | NA (NA) | coding (485/4194 nt) | rhsC | Rhs protein with putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | = 1207805 | 116 (0.830) | 27 (0.240) | 21/146 | NT | 20.4% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 116 (1.010) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 179 (1.340) | 95/170 | NT | 100% | 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 | 1665136 = | NA (NA) | 5 (0.040) | 4/156 | NT | NA | noncoding (1/31 nt) | REP125 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP125 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | 1665167 = | NA (NA) | intergenic (+47/‑148) | dmsD/clcB | twin‑argninine leader‑binding protein for DmsA and TorA/H(+)/Cl(‑) exchange transporter | |||||
| * | ? | NC_000913 | = 1843797 | NA (NA) | 8 (0.060) | 7/166 | NT | NA | noncoding (74/93 nt) | REP131 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP131 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | = 1843810 | NA (NA) | noncoding (87/93 nt) | REP131 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP131 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | = 1978502 | 0 (0.000) | 127 (1.000) | 79/162 | NT | 100% | intergenic (‑305/+16) | flhD/insB1 | flagellar class II regulon transcriptional activator, with FlhC/IS1 transposase B |
| ? | NC_000913 | 1979279 = | 0 (0.000) | intergenic (‑64/‑474) | insA/uspC | IS1 repressor TnpA/universal stress protein | |||||
| * | ? | NC_000913 | = 2066832 | 0 (0.000) | 24 (0.190) | 12/160 | NT | 100% | noncoding (522/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 2066857 | NA (NA) | noncoding (497/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 2146653 | NA (NA) | 5 (0.040) | 4/164 | NT | NA | noncoding (54/84 nt) | REP147 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP147 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | = 2146683 | NA (NA) | noncoding (84/84 nt) | REP147 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP147 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | = 2539674 | NA (NA) | 14 (0.110) | 11/164 | 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) | 81 (0.620) | 15/166 | 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) | 74 (0.570) | 18/166 | 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 | 2728214 = | NA (NA) | 59 (0.440) | 15/170 | NT | NA | noncoding (971/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| ? | NC_000913 | 2728240 = | NA (NA) | noncoding (945/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | 2835067 = | NA (NA) | 13 (0.100) | 9/164 | NT | NA | noncoding (1/82 nt) | REP195 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP195 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | 2835099 = | NA (NA) | noncoding (33/82 nt) | REP195 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP195 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | 3163644 = | NA (NA) | 16 (0.130) | 6/160 | NT | NA | noncoding (1/30 nt) | REP223 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP223 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | 3163674 = | NA (NA) | intergenic (‑193/+41) | plsC/parC | 1‑acyl‑sn‑glycerol‑3‑phosphate acyltransferase/DNA topoisomerase IV, subunit A | |||||
| * | ? | NC_000913 | 3281702 = | NA (NA) | 12 (0.090) | 7/164 | NT | NA | noncoding (1/82 nt) | REP239 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP239 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | 3281734 = | NA (NA) | noncoding (33/82 nt) | REP239 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP239 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | = 3525557 | NA (NA) | 14 (0.110) | 11/164 | NT | NA | noncoding (80/98 nt) | RIP251 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP251 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913 | = 3525568 | NA (NA) | noncoding (91/98 nt) | RIP251 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP251 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | 3546222 = | NA (NA) | 13 (0.100) | 8/166 | NT | NA | noncoding (1/36 nt) | REP253 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP253 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | 3546254 = | NA (NA) | noncoding (33/36 nt) | REP253 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP253 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||
| * | ? | NC_000913 | = 3620614 | NA (NA) | 22 (0.170) | 11/166 | NT | 100% | coding (1423/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | = 3620635 | 0 (0.000) | coding (1444/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | 3650712 = | NA (NA) | 16 (0.120) | 9/164 | 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 | 3765531 = | NA (NA) | 16 (0.120) | 4/168 | NT | 100% | coding (3349/4134 nt) | rhsA | Rhs protein with putative toxin 55 domain; putative polysaccharide synthesis/export protein; putative neighboring cell growth inhibitor |
| ? | NC_000913 | 3765547 = | 0 (0.000) | coding (3365/4134 nt) | rhsA | Rhs protein with putative toxin 55 domain; putative polysaccharide synthesis/export protein; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | 3898629 = | NA (NA) | 14 (0.110) | 8/162 | NT | NA | intergenic (+20/+42) | cbrC/yieK | UPF0167 family protein/putative 6‑phosphogluconolactonase |
| ? | NC_000913 | 3898659 = | NA (NA) | intergenic (+50/+12) | cbrC/yieK | UPF0167 family protein/putative 6‑phosphogluconolactonase | |||||
| * | ? | NC_000913 | = 3943543 | NA (NA) | 8 (0.070) | 7/156 | NT | 100% | intergenic (+33/‑161) | gltU/rrlC | tRNA‑Glu/23S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 3943583 | 0 (0.000) | intergenic (+73/‑121) | gltU/rrlC | tRNA‑Glu/23S ribosomal RNA of rrnC operon | |||||
| * | ? | NC_000913 | = 4035360 | NA (NA) | 27 (0.210) | 12/166 | NT | 100% | intergenic (+207/‑171) | hemG/rrsA | protoporphyrin oxidase, flavoprotein/16S ribosomal RNA of rrnA operon |
| ? | NC_000913 | = 4035384 | 0 (0.000) | intergenic (+231/‑147) | hemG/rrsA | protoporphyrin oxidase, flavoprotein/16S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | 4040482 = | NA (NA) | 42 (0.320) | 14/166 | NT | NA | intergenic (+59/‑35) | rrlA/rrfA | 23S ribosomal RNA of rrnA operon/5S ribosomal RNA of rrnA operon |
| ? | NC_000913 | 4040506 = | NA (NA) | intergenic (+83/‑11) | rrlA/rrfA | 23S ribosomal RNA of rrnA operon/5S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | 4132351 = | NA (NA) | 5 (0.040) | 4/162 | NT | NA | noncoding (5/34 nt) | REP306 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP306 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | 4132381 = | NA (NA) | intergenic (+114/‑235) | metL/metF | Bifunctional aspartokinase/homoserine dehydrogenase 2/5,10‑methylenetetrahydrofolate reductase | |||||
| * | ? | NC_000913 | = 4166372 | 26 (0.190) | 11 (0.080) | 8/168 | NT | 31.0% | intergenic (+87/‑287) | murI/rrsB | glutamate racemase/16S ribosomal RNA of rrnB operon |
| ? | NC_000913 | = 4166399 | NA (NA) | intergenic (+114/‑260) | murI/rrsB | glutamate racemase/16S ribosomal RNA of rrnB operon | |||||
| * | ? | NC_000913 | = 4415961 | NA (NA) | 18 (0.140) | 11/166 | NT | NA | noncoding (4/34 nt) | REP332 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP332 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | = 4415991 | NA (NA) | noncoding (34/34 nt) | REP332 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP332 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||
| * | ? | NC_000913 | 4415962 = | NA (NA) | 20 (0.150) | 11/166 | NT | NA | noncoding (5/34 nt) | REP332 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP332 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | 4415992 = | NA (NA) | intergenic (+92/+25) | aidB/yjfN | DNA alkylation damage repair protein; flavin‑containing DNA binding protein, weak isovaleryl CoA dehydrogenase/DUF1471 family periplasmic protein | |||||
| * | ? | NC_000913 | = 4488511 | NA (NA) | 11 (0.080) | 7/170 | NT | NA | noncoding (7/36 nt) | REP343 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP343 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | = 4488537 | NA (NA) | noncoding (33/36 nt) | REP343 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP343 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||