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 | 2,153 | G→T | 15.6% | R113S (CGT→AGT) | rsmG ← | 16S RNA methyltransferase |
| RA | 105,230 | G→T | 13.8% | K8N (AAG→AAT) | cynT → | carbonic anhydrase |
| RA | 139,547 | C→A | 16.6% | G319G (GGG→GGT) | kinB ← | alginate biosynthesis sensor protein KinB |
| RA | 154,906 | C→A | 19.0% | L130L (CTG→CTT) | yjbB ← | Na+/Pi‑cotransporter |
| RA | 188,837 | C→T | 100% | R316C (CGC→TGC) | PP_0165 → | GGDEF domain‑containing protein |
| RA | 195,634 | C→T | 32.1% | T380T (ACC→ACT) | PP_0168 → | putative surface adhesion protein |
| RA | 196,306 | T→C | 28.3% | N604N (AAT→AAC) | PP_0168 → | putative surface adhesion protein |
| RA | 196,327 | A→C | 35.6% | T611T (ACA→ACC) | PP_0168 → | putative surface adhesion protein |
| RA | 196,340 | Δ1 bp | 35.7% | coding (1846/26049 nt) | PP_0168 → | putative surface adhesion protein |
| RA | 196,351 | C→G | 34.5% | T619T (ACC→ACG) | PP_0168 → | putative surface adhesion protein |
| RA | 196,390 | T→C | 27.3% | D632D (GAT→GAC) | PP_0168 → | putative surface adhesion protein |
| RA | 197,089 | T→C | 14.3% | N865N (AAT→AAC) | PP_0168 → | putative surface adhesion protein |
| RA | 197,572 | G→A | 23.5% | K1026K (AAG→AAA) | PP_0168 → | putative surface adhesion protein |
| RA | 197,851 | C→G | 30.7% | T1119T (ACC→ACG) | PP_0168 → | putative surface adhesion protein |
| RA | 233,545 | C→T | 100% | G548G (GGC→GGT) | PP_0180 → | cytochrome c family protein |
| RA | 354,133 | G→T | 21.0% | S67* (TCG→TAG) | cbcV ← | choline/betaine/carnitine ABC transporter ATP binding protein |
| RA | 435,616 | C→A | 13.8% | intergenic (‑414/‑36) | glcB ← / → PP_0357 | malate synthase G/ACT domain‑containing protein |
| RA | 476,133 | A→T | 100% | Q141L (CAG→CTG) | tsaD → | tRNA N6‑adenosine(37)‑threonylcarbamoyltransferase complex transferase subunit TsaD |
| RA | 505,659 | G→T | 25.0% | Q50H (CAG→CAT) | trpE → | anthranilate synthase component 1 |
| RA | 687,827 | C→T | 13.8% | P230L (CCT→CTT) | ydgK → | Bcr/CflA family multidrug resistance transporter |
| RA | 699,725 | A→G | 52.6% | intergenic (+115/‑129) | PP_t06 → / → PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| RA | 721,088 | G→T | 18.1% | A37A (GCC→GCA) | PP_0614 ← | bifunctional N‑carbamoyl‑beta‑alanine amidohydrolase/allantoine amidohydrolase |
| RA | 795,629 | G→A | 19.0% | A590T (GCC→ACC) | PP_0680 → | ATP‑dependent protease‑like protein |
| RA | 833,898 | G→A | 15.4% | A191T (GCA→ACA) | PP_0717 → | membrane protein |
| RA | 844,942 | G→T | 16.6% | P357H (CCC→CAC) | PP_0728 ← | hypothetical protein |
| RA | 860,862 | C→A | 44.0% | G301G (GGG→GGT) | PP_0742 ← | hypothetical protein |
| RA | 976,913 | C→A | 16.6% | P207P (CCC→CCA) | trmJ → | tRNA (cytosine(32)/uridine(32)‑2'‑O)‑methyltransferase TrmJ |
| RA | 983,026 | T→C | 12.9% | F12L (TTC→CTC) | fdx → | ferredoxin |
| RA | 1,011,323:1 | +T | 100% | intergenic (‑258/+192) | PP_0871 ← / ← SBRG_Ecoli_galM | glycine betaine/carnitine/choline ABC transporter permease/SBRG_Ecoli_galM |
| RA | 1,097,531 | T→A | 25.0% | N84Y (AAT→TAT) | ptsH ← | phosphocarrier protein HPr |
| RA | 1,167,910:1 | +A | 100% | coding (723/1344 nt) | oprB‑I → | carbohydrate‑selective porin |
| RA | 1,188,991 | G→T | 25.0% | Q117K (CAG→AAG) | mltF ← | membrane‑bound lytic murein transglycosylase F |
| RA | 1,297,749 | C→A | 19.0% | L133M (CTG→ATG) | PP_1128 → | OmpA family protein |
| RA | 1,397,973 | G→T | 12.1% | M1M (ATG→ATT) † | ruvC → | crossover junction endodeoxyribonuclease RuvC |
| RA | 1,410,162 | C→A | 20.0% | G159C (GGC→TGC) | PP_1228 ← | methyl‑accepting chemotaxis transducer |
| RA | 1,498,121 | A→T | 40.0% | L569Q (CTA→CAA) | PP_1306 ← | Pyocin S‑type killer domain‑containing protein |
| RA | 1,505,477 | G→T | 22.3% | V311V (GTG→GTT) | zapE → | nucleoside triphosphate hydrolase domain‑containing protein |
| MC JC | 1,515,769 | Δ33 bp | 100% | pseudogene (757‑789/1851 nt) | PP_1325 ← | putative lipoprotein |
| RA | 1,563,618 | G→T | 22.2% | H92N (CAT→AAT) | PP_1369 ← | hypothetical protein |
| RA | 1,751,350 | G→T | 13.4% | P36Q (CCG→CAG) | PP_1544 ← | hypothetical protein |
| RA | 1,856,513 | A→G | 100% | D203G (GAT→GGT) | relA → | ATP:GTP 3'‑pyrophosphotransferase |
| RA | 1,882,673 | C→A | 15.9% | Q85K (CAG→AAG) | PP_1683 → | MarR family transcriptional regulator |
| RA | 1,882,734 | C→A | 16.7% | P105Q (CCG→CAG) | PP_1683 → | MarR family transcriptional regulator |
| RA | 1,902,057 | C→A | 38.2% | W3L (TGG→TTG) | sugE ← | transporter |
| RA | 1,928,178 | G→T | 19.0% | F19L (TTC→TTA) | PP_1722 ← | ABC transporter ATP‑binding protein |
| RA | 1,976,988 | C→G | 19.0% | R309G (CGT→GGT) | gyrA → | DNA gyrase subunit A |
| RA | 2,086,097 | A→G | 12.7% | intergenic (+23/+92) | efp → / ← ohr | elongation factor P/organic hydroperoxide resistance protein |
| RA | 2,092,627 | T→C | 15.6% | intergenic (+448/+470) | PP_1865 → / ← aroH | transposase/3‑deoxy‑7‑phosphoheptulonate synthase |
| RA | 2,092,662 | C→T | 13.3% | intergenic (+483/+435) | PP_1865 → / ← aroH | transposase/3‑deoxy‑7‑phosphoheptulonate synthase |
| RA | 2,092,664 | C→G | 13.3% | intergenic (+485/+433) | PP_1865 → / ← aroH | transposase/3‑deoxy‑7‑phosphoheptulonate synthase |
| RA | 2,092,668 | G→C | 14.4% | intergenic (+489/+429) | PP_1865 → / ← aroH | transposase/3‑deoxy‑7‑phosphoheptulonate synthase |
| RA | 2,092,669 | C→A | 14.8% | intergenic (+490/+428) | PP_1865 → / ← aroH | transposase/3‑deoxy‑7‑phosphoheptulonate synthase |
| RA | 2,106,743 | A→C | 46.4% | L186R (CTG→CGG) | PP_1878 ← | hypothetical protein |
| RA | 2,205,589 | G→T | 40.0% | Q57H (CAG→CAT) | folD‑I → | bifunctional methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase |
| RA | 2,251,549 | G→T | 18.2% | V1014V (GTC→GTA) | PP_1983 ← | PAS/PAC/GAF sensor‑containing diguanylate cyclase/phosphodiesterase |
| RA | 2,329,204 | C→A | 16.6% | P300P (CCC→CCA) | PP_2043 → | hypothetical protein |
| RA | 2,394,839 | C→T | 12.3% | I236I (ATC→ATT) | rlmKL → | 23S rRNA (guanine(2445)‑N(2))/(guanine(2069)‑N(7))‑ methyltransferase |
| RA | 2,426,415 | C→T | 15.4% | G78G (GGC→GGT) | moaB‑I → | molybdenum cofactor biosynthesis protein B |
| RA | 2,467,392 | G→T | 26.7% | S52S (TCG→TCT) | lolD → | lipoprotein‑releasing system ATP‑binding protein LolD |
| RA | 2,612,160 | C→A | 22.2% | R560S (CGC→AGC) | PP_2284 → | tail tubular protein B |
| RA | 2,729,230 | G→T | 16.0% | T118T (ACC→ACA) | azlC ← | branched‑chain amino acid transport protein AzlC |
| RA | 2,737,772 | T→C | 18.2% | V706A (GTG→GCG) | polB → | DNA polymerase II |
| RA | 2,788,534 | C→A | 16.6% | intergenic (‑120/‑6) | PP_2436 ← / → PP_2437 | LysR family transcriptional regulator/acyl‑CoA dehydrogenase |
| RA | 2,910,964 | T→A | 13.9% | intergenic (‑164/+52) | PP_2557 ← / ← PP_2558 | sensory box protein/outer membrane efflux protein |
| RA | 2,960,145 | G→T | 25.0% | E126* (GAA→TAA) | PP_2587 → | LuxR family transcriptional regulator |
| RA | 3,126,217 | C→A | 14.8% | W73C (TGG→TGT) | PP_2737 ← | short‑chain dehydrogenase/reductase family oxidoreductase |
| RA | 3,173,278 | C→A | 25.0% | H61N (CAC→AAC) | PP_2782 → | class III pyridoxalphosphate dependent aminotransferase |
| RA | 3,432,240 | C→A | 32.8% | V399V (GTC→GTA) | PP_3042 → | terminase large subunit |
| RA | 3,573,892 | C→A | 13.3% | P486Q (CCG→CAG) | PP_3150 → | hypothetical protein |
| RA | 3,592,118 | G→A | 30.8% | A440A (GCG→GCA) | benK → | benzoate MFS transporter |
| RA | 3,675,665 | C→A | 28.5% | D154Y (GAC→TAC) | PP_5591 ← | hypothetical protein |
| RA | 3,783,039 | C→T | 22.1% | S367S (AGC→AGT) | PP_3340 → | TonB‑dependent receptor |
| RA | 3,796,598 | T→G | 42.7% | D571A (GAC→GCC) | PP_3354 ← | acyl‑CoA dehydrogenase |
| RA | 3,880,934 | C→A | 17.8% | L145M (CTG→ATG) | xcpS → | type II secretion pathway protein XcpS |
| RA | 3,913,185 | G→T | 10.5% | Q47H (CAG→CAT) | PP_3450 → | TPR repeat‑containing protein |
| RA | 3,916,115 | C→T | 11.7% | D144D (GAC→GAT) | PP_3451 → | hypothetical protein |
| RA | 3,981,108 | A→C | 23.1% | A251A (GCT→GCG) | PP_3506 ← | magnesium chelatase subunit ChII |
| RA | 3,985,114 | C→T | 12.9% | P170P (CCG→CCA) | cobN ← | aerobic cobaltochelatase subunit CobN |
| RA | 4,018,201 | G→A | 100% | intergenic (+144/‑36) | mvaB → / → PP_mr44 | hydroxymethylglutaryl‑CoA lyase/CrcZ ncRNA |
| RA | 4,056,972 | G→T | 12.5% | P159Q (CCG→CAG) | PP_3571 ← | acetylornithine deacetylase |
| RA | 4,059,725 | C→A | 15.4% | L436I (CTC→ATC) | PP_3573 → | monooxygenase |
| RA | 4,061,752 | G→T | 17.4% | F301L (TTC→TTA) | PP_3575 ← | ferric siderophore receptor |
| RA | 4,065,399 | G→T | 19.0% | P165T (CCG→ACG) | pgm ← | phosphoglucomutase |
| RA | 4,139,855 | G→T | 17.4% | V56V (GTC→GTA) | PP_3638 ← | acyl‑CoA dehydrogenase |
| RA | 4,254,683 | G→T | 14.8% | Q113K (CAG→AAG) | PP_3724 ← | acyl‑CoA synthetase |
| RA | 4,291,910 | G→A | 13.8% | H273H (CAC→CAT) | PP_3758 ← | two component system response regulator/sensor histidine kinase |
| RA | 4,300,295 | C→T | 19.4% | C24Y (TGT→TAT) | opdN ← | outer‑membrane porin D |
| RA | 4,306,909 | T→G | 33.5% | intergenic (+406/‑894) | PP_3774 → / → PP_5627 | hypothetical protein/hypothetical protein |
| RA | 4,410,290 | C→A | 26.6% | intergenic (+146/+3) | PP_5641 → / ← PP_3886 | hypothetical protein/hypothetical protein |
| RA | 4,429,042 | G→T | 15.4% | P94P (CCG→CCT) | PP_3915 → | hypothetical protein |
| RA | 4,436,349 | G→T | 13.8% | D8Y (GAC→TAC) | PP_3926 → | short‑chain dehydrogenase |
| RA | 4,457,561 | C→A | 10.5% | T724T (ACC→ACA) | nicB → | nicotinate dehydrogenase subunit B |
| RA | 4,518,611 | C→T | 16.0% | E458E (GAG→GAA) | ftsK ← | DNA translocase FtsK |
| RA | 4,602,469 | G→T | 25.0% | L779M (CTG→ATG) | PP_4071 ← | membrane protein |
| RA | 4,641,787 | G→T | 25.0% | S122* (TCG→TAG) | PP_4102 ← | hypothetical protein |
| RA | 4,654,628 | C→A | 28.4% | V427V (GTG→GTT) | PP_4113 ← | hypothetical protein |
| RA | 4,719,906 | G→T | 36.5% | G48W (GGG→TGG) | PP_4173 → | two‑component system sensor histidine kinase/response regulator |
| RA | 4,732,931 | A→T | 19.0% | M245K (ATG→AAG) | sucD ← | succinyl‑CoA synthetase subunit alpha |
| RA | 4,746,222:1 | +C | 100% | intergenic (+464/+288) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,746,224 | A→G | 100% | intergenic (+466/+286) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,746,226 | C→T | 100% | intergenic (+468/+284) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,746,229 | C→T | 100% | intergenic (+471/+281) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,746,232 | C→G | 100% | intergenic (+474/+278) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,746,234 | 2 bp→CT | 100% | intergenic (+476/+275) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,746,248 | C→T | 100% | intergenic (+490/+262) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,746,250 | A→C | 100% | intergenic (+492/+260) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,746,253 | 2 bp→GC | 100% | intergenic (+495/+256) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,751,312 | C→A | 21.0% | D232Y (GAC→TAC) | etfA ← | electron transfer flavoprotein subunit alpha |
| RA | 4,759,697 | G→T | 10.8% | G375C (GGC→TGC) | pvdR → | ABC transporter permease |
| RA | 4,814,813 | C→A | 12.9% | P458P (CCC→CCA) | dsbD‑II → | thiol/disulfide interchange protein 2 |
| RA | 4,858,270 | G→T | 15.3% | Q609K (CAG→AAG) | dnaX ← | DNA polymerase III subunit gamma |
| RA | 4,883,770 | C→A | 18.1% | R167S (CGC→AGC) | pucL → | 2‑oxo‑4‑hydroxy‑4‑carboxy‑5‑ureidoimidazoline decarboxylase |
| RA | 4,886,835 | C→A | 11.4% | F308L (TTC→TTA) | uacT → | uric acid permease |
| RA | 4,887,078 | Δ1 bp | 16.7% | coding (1167/1356 nt) | uacT → | uric acid permease |
| RA | 5,104,416 | G→T | 30.8% | intergenic (‑28/‑241) | acsA‑I ← / → PP_4488 | acetyl‑CoA synthetase/hypothetical protein |
| RA | 5,203,926 | G→T | 12.9% | L72L (CTG→CTT) | PP_4579 → | LysR family transcriptional regulator |
| RA | 5,274,792 | C→A | 23.5% | E182* (GAG→TAG) | radA ← | DNA repair enzyme |
| RA | 5,303,855 | G→T | 16.0% | S415* (TCA→TAA) | recD ← | multifunctional ATP‑dependent DNA helicase/dsDNA/ssDNA exonuclease/ssDNA endonuclease |
| RA | 5,304,678 | C→A | 23.5% | G141C (GGC→TGC) | recD ← | multifunctional ATP‑dependent DNA helicase/dsDNA/ssDNA exonuclease/ssDNA endonuclease |
| RA | 5,455,074 | G→T | 25.0% | D316Y (GAC→TAC) | ybeZ → | nucleoside triphosphate hydrolase domain‑containing protein |
| RA | 5,464,830 | C→A | 16.0% | P84P (CCC→CCA) | holA → | DNA polymerase III subunit delta |
| RA | 5,486,149 | G→T | 15.3% | S214I (AGC→ATC) | PP_4819 → | hypothetical protein |
| RA | 5,516,382 | C→T | 13.3% | P33S (CCA→TCA) | urtC → | urea ABC transporter permease |
| RA | 5,519,853 | C→A | 13.8% | G70W (GGG→TGG) | cbpM ← | chaperone modulatory protein |
| RA | 5,597,592 | A→T | 17.4% | M180L (ATG→TTG) | PP_4920 → | lipoprotein |
| RA | 5,604,893 | C→A | 30.6% | G1197W (GGG→TGG) | PP_4924 ← | subtilase family serine protease |
| RA | 5,626,701 | G→A | 17.4% | N195N (AAC→AAT) | PP_4940 ← | glycosyltransferase |
| RA | 5,754,851 | G→T | 22.2% | S45Y (TCC→TAC) | typA ← | ribosome associated GTPase |
| RA | 5,867,552 | C→A | 12.5% | R81L (CGG→CTG) | fbpC ← | ABC transporter ATP‑binding protein |
| RA | 5,993,808 | G→T | 30.4% | intergenic (+97/‑449) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 5,993,916 | A→C | 39.1% | intergenic (+205/‑341) | kefB‑III → / → PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| RA | 6,178,139 | G→A | 20.0% | intergenic (‑53/+137) | PP_5410 ← / ← glmU | DeoR family transcriptional regulator/bifunctional N‑acetyl glucosamine‑1‑phosphate uridyltransferase/glucosamine‑1‑phosphate acetyl transferase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_002947 | 91788 | 91844 | 57 | 2 [0] | [1] 3 | trpA | tryptophan synthase subunit alpha |
| * | * | ÷ | NC_002947 | 97588 | 97611 | 24 | 2 [0] | [1] 5 | [PP_0091] | [PP_0091] |
| * | * | ÷ | NC_002947 | 171364–172965 | 176293–172975 | 11–4930 | 4 [1] | [1] 2 | PP_16SA–[PP_5SA] | PP_16SA,PP_23SA,[PP_5SA] |
| * | * | ÷ | NC_002947 | 176667–178395 | 181699–178405 | 11–5033 | 2 [1] | [1] 2 | PP_16SB–[PP_r01] | PP_16SB,PP_23SB,[PP_r01] |
| * | * | ÷ | NC_002947 | 316010 | 316041 | 32 | 3 [0] | [0] 2 | cysQ/PP_0262 | 3'(2'),5'‑bisphosphate nucleotidase CysQ/hypothetical protein |
| * | * | ÷ | NC_002947 | 353099 | 353161 | 63 | 2 [1] | [0] 2 | [cbcV] | [cbcV] |
| * | * | ÷ | NC_002947 | 499231 | 499252 | 22 | 2 [1] | [1] 2 | uhpA/PP_0411 | two‑component system response regulator UhpA/polyamine ABC transporter ATP‑binding protein |
| * | * | ÷ | NC_002947 | 524169 | 524189 | 21 | 2 [0] | [1] 2 | tyrS/PP_16SC | tyrosine‑‑tRNA ligase/16S ribosomal RNA |
| * | * | ÷ | NC_002947 | 614267 | 614350 | 84 | 4 [1] | [1] 3 | dxs/ispA | 1‑deoxyxylulose‑5‑phosphate synthase/farnesyl diphosphate synthase |
| * | * | ÷ | NC_002947 | 681272 | 681301 | 30 | 2 [1] | [0] 2 | PP_0583/PP_0584 | AraC family transcriptional regulator/methyl‑accepting chemotaxis transducer |
| * | * | ÷ | NC_002947 | 718452 | 718484 | 33 | 3 [1] | [1] 2 | thiO/PP_0613 | FAD‑dependent glycine/D‑amino acid oxidase/amidase family protein |
| * | * | ÷ | NC_002947 | 796844 | 796847 | 4 | 2 [1] | [0] 2 | PP_0681/PP_0682 | hypothetical protein/inner membrane protein |
| * | * | ÷ | NC_002947 | 867979 | 868010 | 32 | 2 [0] | [1] 2 | PP_0750/mqo‑I | hypothetical protein/malate:quinone oxidoreductase |
| * | * | ÷ | NC_002947 | 883871 | 883918 | 48 | 2 [0] | [1] 2 | PP_0766/PP_0767 | hypothetical protein/LuxR family transcriptional regulator |
| * | * | ÷ | NC_002947 | 915023 | 915124 | 102 | 2 [1] | [1] 2 | [fruA] | [fruA] |
| * | * | ÷ | NC_002947 | 955149 | 955161 | 13 | 3 [1] | [1] 2 | cyoE/alaC | protoheme IX farnesyltransferase/aminotransferase |
| * | * | ÷ | NC_002947 | 975192 | 975236 | 45 | 2 [0] | [1] 2 | ycfJ/suhB | flagella biosyntheis regulator/bifunctional inositol monophosphatase/glycerol‑2‑phosphatase |
| * | * | ÷ | NC_002947 | 1007517 | 1007576 | 60 | 2 [1] | [1] 2 | PP_0867/yehX | FecA‑like outer membrane receptor/ABC transporter ATP‑binding protein |
| * | * | ÷ | NC_002947 | 1042737 | 1042757 | 21 | 2 [1] | [1] 2 | PP_0896/PP_0897 | carbon‑nitrogen hydrolase family protein/class 1 fumarate hydratase |
| * | * | ÷ | NC_002947 | 1110272 | 1110285 | 14 | 2 [1] | [0] 3 | hisG/hisD | ATP phosphoribosyltransferase/histidinol dehydrogenase |
| * | * | ÷ | NC_002947 | 1131565 | 1131576 | 12 | 5 [0] | [0] 2 | tdcG‑II/gcvP‑I | L‑serine dehydratase/glycine dehydrogenase |
| * | * | ÷ | NC_002947 | 1363714 | 1363726 | 13 | 2 [1] | [0] 2 | PP_1183 | siderophore biosynthesis protein |
| * | * | ÷ | NC_002947 | 1388205 | 1388213 | 9 | 3 [1] | [1] 2 | PP_1204 | lipoprotein |
| * | * | ÷ | NC_002947 | 1408543 | 1408563 | 21 | 2 [0] | [1] 2 | PP_1227/PP_1228 | membrane protein/methyl‑accepting chemotaxis transducer |
| * | * | ÷ | NC_002947 | 1414071 | 1414082 | 12 | 2 [0] | [1] 2 | PP_1230/nadA | hypothetical protein/quinolinate synthase iron‑sulfur cluster subunit |
| * | * | ÷ | NC_002947 | 1448046 | 1448116 | 71 | 3 [1] | [1] 2 | ghrB/PP_1262 | 2‑ketoaldonate reductase/hydroxypyruvate/glyoxylate reductase/LysR family transcriptional regulator |
| * | * | ÷ | NC_002947 | 1469143 | 1469163 | 21 | 2 [1] | [0] 2 | algX | alginate biosynthesis protein AlgX |
| * | * | ÷ | NC_002947 | 1504403 | 1504508 | 106 | 3 [1] | [1] 2 | trpS/zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
| * | * | ÷ | NC_002947 | 1536779 | 1536786 | 8 | 2 [0] | [1] 2 | PP_1344 | hypothetical protein |
| * | * | ÷ | NC_002947 | 1575419 | 1575476 | 58 | 3 [1] | [1] 2 | pcaF‑I/pcaT | beta‑ketoadipyl‑CoA thiolase/alpha‑ketoglutarate permease |
| * | * | ÷ | NC_002947 | 1597576 | 1597646 | 71 | 2 [1] | [0] 2 | PP_1397 | hypothetical protein |
| * | * | ÷ | NC_002947 | 1644574 | 1644601 | 28 | 3 [0] | [1] 3 | czcR‑III/PP_1439 | response regulator/hypothetical protein |
| * | * | ÷ | NC_002947 | 1739825 | 1739867 | 43 | 3 [1] | [1] 2 | tcdA/PP_1528 | tRNA cyclic N6‑threonylcarbamoyladenosine(37) synthase TcdA/hypothetical protein |
| * | * | ÷ | NC_002947 | 1847788 | 1847813 | 26 | 2 [1] | [1] 2 | gacS | sensor protein GacS |
| * | * | ÷ | NC_002947 | 1935360 | 1935407 | 48 | 3 [1] | [0] 2 | PP_1729/apeB | hypothetical protein/M18 family aminopeptidase |
| * | * | ÷ | NC_002947 | 2043237 | 2043267 | 31 | 2 [1] | [0] 2 | PP_mr27/rffE | C4 ncRNA/UDP‑N‑acetylglucosamine‑2‑epimerase |
| * | * | ÷ | NC_002947 | 2104940 | 2104994 | 55 | 2 [1] | [0] 2 | PP_1875/PP_1876 | two‑component system sensor histidine kinase/response regulator/AAA family ATP/GTP‑binding protein |
| * | * | ÷ | NC_002947 | 2220826 | 2221030 | 205 | 2 [1] | [1] 2 | PP_1957/PP_5493 | Pdr/VanB family oxidoreductase/hypothetical protein |
| * | * | ÷ | NC_002947 | 2246258 | 2246327 | 70 | 2 [1] | [1] 2 | gltX/PP_t25 | glutamate‑‑tRNA ligase/tRNA‑Ala |
| * | * | ÷ | NC_002947 | 2300794 | 2300860 | 67 | 2 [1] | [1] 2 | PP_5496/PP_2023 | hypothetical protein/glutathione S‑transferase family protein |
| * | * | ÷ | NC_002947 | 2477167 | 2477172 | 6 | 2 [1] | [1] 2 | PP_2166/PP_2167 | anti‑anti‑sigma factor/PhoD‑like phosphatase |
| * | * | ÷ | NC_002947 | 2479127 | 2479150 | 24 | 3 [1] | [1] 2 | PP_2167/tal | PhoD‑like phosphatase/transaldolase |
| * | * | ÷ | NC_002947 | 2483356 | 2483445 | 90 | 2 [1] | [0] 2 | PP_2172 | hypothetical protein |
| * | * | ÷ | NC_002947 | 2525248 | 2525273 | 26 | 3 [1] | [1] 2 | PP_2212 | leucine‑rich repeat‑containing protein |
| * | * | ÷ | NC_002947 | 2673048 | 2673081 | 34 | 2 [1] | [1] 3 | prpF/prpD | aconitate isomerase/2‑methylcitrate dehydratase |
| * | * | ÷ | NC_002947 | 2826033 | 2826045 | 13 | 3 [1] | [0] 2 | PP_2474 | glutathione S‑transferase family protein |
| * | * | ÷ | NC_002947 | 2842101 | 2842138 | 38 | 2 [1] | [1] 2 | sad‑I/PP_2489 | NAD+‑dependent succinate semialdehyde dehydrogenase/xenobiotic reductase |
| * | * | ÷ | NC_002947 | 2870443 | 2870485 | 43 | 2 [1] | [1] 2 | gllP/glllA | porin‑like protein/gallate dioxygenase |
| * | * | ÷ | NC_002947 | 3052203 | 3052216 | 14 | 2 [0] | [0] 2 | pstB‑I/PP_2660 | phosphate ABC transporter ATP‑binding protein/hypothetical protein |
| * | * | ÷ | NC_002947 | 3058181 | 3058228 | 48 | 3 [1] | [1] 2 | [PP_2664] | [PP_2664] |
| * | * | ÷ | NC_002947 | 3176792 | 3176811 | 20 | 2 [1] | [1] 2 | PP_2784 | short‑chain dehydrogenase/reductase family oxidoreductase |
| * | * | ÷ | NC_002947 | 3471825 | 3471857 | 33 | 3 [0] | [1] 2 | PP_3081/PP_5560 | hypothetical protein/hypothetical protein |
| * | * | ÷ | NC_002947 | 3593117 | 3593126 | 10 | 2 [1] | [0] 2 | catA‑II/benE‑II | catechol 1,2‑dioxygenase/benzoate transport protein |
| * | * | ÷ | NC_002947 | 3781329 | 3781407 | 79 | 2 [1] | [1] 2 | PP_3338/PP_3339 | cytochrome bd‑type quinol oxidase/hypothetical protein |
| * | * | ÷ | NC_002947 | 3850712 | 3850727 | 16 | 2 [1] | [1] 2 | [PP_3395] | [PP_3395] |
| * | * | ÷ | NC_002947 | 3933375 | 3933380 | 6 | 2 [0] | [0] 2 | peaE/PP_3464 | phenylacetaldehyde dehydrogenase/hypothetical protein |
| * | * | ÷ | NC_002947 | 3934800 | 3934858 | 59 | 2 [1] | [0] 3 | [PP_5603] | [PP_5603] |
| * | * | ÷ | NC_002947 | 3956074 | 3956147 | 74 | 2 [1] | [1] 2 | PP_3486/PP_3487 | cytochrome c/hypothetical protein |
| * | * | ÷ | NC_002947 | 4054901 | 4054917 | 17 | 4 [1] | [0] 2 | quiA/oprB‑III | quinate dehydrogenase/carbohydrate‑selective porin |
| * | * | ÷ | NC_002947 | 4119313 | 4119341 | 29 | 3 [1] | [0] 2 | PP_3619/ycaO | hypothetical protein/ribosomal protein S12 methylthiotransferase accessory factor |
| * | * | ÷ | NC_002947 | 4155063 | 4155077 | 15 | 2 [0] | [1] 3 | PP_3654/PP_3655 | leucine‑responsive regulatory protein/cytosine/purine/uracil/thiamine/allantoin permease family protein |
| * | * | ÷ | NC_002947 | 4175097 | 4175209 | 113 | 3 [1] | [0] 2 | katG/PP_3669 | catalase‑peroxidase/LysR family transcriptional regulator |
| * | * | ÷ | NC_002947 | 4186345 | 4186421 | 77 | 2 [1] | [1] 2 | PP_3678 | hypothetical protein |
| * | * | ÷ | NC_002947 | 4188130 | 4188182 | 53 | 2 [1] | [1] 2 | PP_3680 | hypothetical protein |
| * | * | ÷ | NC_002947 | 4223137 | 4223152 | 16 | 2 [1] | [1] 2 | PP_3698 | hypothetical protein |
| * | * | ÷ | NC_002947 | 4345058 | 4345107 | 50 | 2 [1] | [1] 3 | ribAB‑II/PP_3814 | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein |
| * | * | ÷ | NC_002947 | 4349279 | 4349308 | 30 | 2 [1] | [1] 2 | PP_3817/PP_3818 | polyamine ABC transporter ATP‑binding protein/phosphate‑binding protein |
| * | * | ÷ | NC_002947 | 4358167 | 4358209 | 43 | 2 [1] | [1] 2 | yrpB | 2‑nitropropane dioxygenase |
| * | * | ÷ | NC_002947 | 4502300 | 4502370 | 71 | 2 [1] | [0] 2 | PP_5651 | hypothetical protein |
| * | * | ÷ | NC_002947 | 4534994 | 4535054 | 61 | 2 [1] | [1] 4 | PP_4018/topB | acetyltransferase/DNA topoisomerase III |
| * | * | ÷ | NC_002947 | 4745827 | 4745853 | 27 | 2 [1] | [1] 3 | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | * | ÷ | NC_002947 | 4801585 | 4801655 | 71 | 2 [1] | [1] 2 | [PP_4224] | [PP_4224] |
| * | * | ÷ | NC_002947 | 4813174 | 4813325 | 152 | 26 [1] | [0] 2 | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | * | ÷ | NC_002947 | 4843636 | 4843657 | 22 | 2 [1] | [1] 3 | ccoP‑I | cbb3‑type cytochrome c oxidase subunit |
| * | * | ÷ | NC_002947 | 4894570 | 4894631 | 62 | 2 [1] | [0] 2 | hyi/glxR | hydroxypyruvate isomerase/2‑hydroxy‑3‑oxopropionate reductase |
| * | * | ÷ | NC_002947 | 5068004 | 5068017 | 14 | 2 [1] | [1] 2 | PP_4460 | LysR family transcriptional regulator |
| * | * | ÷ | NC_002947 | 5104548 | 5104591 | 44 | 2 [1] | [1] 2 | acsA‑I/PP_4488 | acetyl‑CoA synthetase/hypothetical protein |
| * | * | ÷ | NC_002947 | 5167585 | 5167597 | 13 | 2 [1] | [0] 4 | PP_4544/PP_4545 | hypothetical protein/beta‑ketodecanoyl‑ACP synthase |
| * | * | ÷ | NC_002947 | 5178243 | 5178259 | 17 | 3 [0] | [1] 2 | fadD‑I/fadD‑II | long‑chain‑fatty acid‑‑CoA ligase/long‑chain‑fatty acid‑‑CoA ligase |
| * | * | ÷ | NC_002947 | 5261835 | 5261863 | 29 | 2 [1] | [1] 2 | [PP_5703] | [PP_5703] |
| * | * | ÷ | NC_002947 | 5265715 | 5265774 | 60 | 2 [1] | [1] 3 | [PP_4637] | [PP_4637] |
| * | * | ÷ | NC_002947 | 5490116 | 5490163 | 48 | 2 [1] | [1] 2 | purH/purD | bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase/phosphoribosylamine‑‑glycine ligase |
| * | * | ÷ | NC_002947 | 5511529 | 5511588 | 60 | 3 [1] | [1] 2 | [PP_4839] | [PP_4839] |
| * | * | ÷ | NC_002947 | 5542026 | 5542066 | 41 | 2 [0] | [1] 2 | nadE/PP_4870 | NH(3)‑dependent NAD(+) synthetase/azurin |
| * | * | ÷ | NC_002947 | 5657968 | 5658003 | 36 | 3 [1] | [1] 2 | PP_4961/PP_4962 | lipoprotein/hypothetical protein |
| * | * | ÷ | NC_002947 | 5686436 | 5686445 | 10 | 2 [1] | [0] 3 | PP_4986/PP_4987 | hemolysin III family channel protein/putative Chemotaxis protein |
| * | * | ÷ | NC_002947 | 5709545 | 5709583 | 39 | 4 [1] | [1] 2 | PP_5006/PP_5007 | TetR family transcriptional regulator/polyhydroxyalkanoate granule‑associated protein GA2 |
| * | * | ÷ | NC_002947 | 5745439 | 5745499 | 61 | 3 [1] | [1] 3 | [hutF] | [hutF] |
| * | * | ÷ | NC_002947 | 5791505 | 5791528 | 24 | 2 [1] | [0] 2 | PP_5068/trxC | hypothetical protein/thioredoxin |
| * | * | ÷ | NC_002947 | 5821894 | 5821916 | 23 | 2 [1] | [1] 2 | PP_5092/pilT | NLP/P60 protein/twitching motility protein |
| * | * | ÷ | NC_002947 | 5902762 | 5902791 | 30 | 2 [1] | [1] 2 | PP_5172/PP_5173 | hypothetical protein/RND family transporter |
| * | * | ÷ | NC_002947 | 5908152 | 5908208 | 57 | 2 [1] | [1] 3 | PP_5175/PP_5176 | HlyD family secretion protein/hypothetical protein |
| * | * | ÷ | NC_002947 | 5908794 | 5908807 | 14 | 2 [1] | [0] 2 | PP_5176/spuH | hypothetical protein/spermidine/putrescine ABC transporter permease |
| * | * | ÷ | NC_002947 | 6005934 | 6005955 | 22 | 2 [0] | [1] 2 | PP_5256/amaA | cyclic nucleotide‑binding protein/L‑pipecolate oxidase |
| * | * | ÷ | NC_002947 | 6085983 | 6085996 | 14 | 2 [1] | [0] 2 | PP_5332/PP_5333 | hypothetical protein/hypothetical protein |
| * | * | ÷ | NC_002947 | 6103385 | 6103445 | 61 | 3 [0] | [1] 2 | PP_5350 | RpiR family transcriptional regulator |
| * | * | ÷ | NC_002947 | 6173351 | 6173454 | 104 | 2 [1] | [1] 2 | PP_5407 | TnsD‑like transposition protein |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 1015848 = | 0 (0.000) | 11 (0.630) | 11/242 | NT | 73.3% | intergenic (‑75/‑693) | SBRG_Ecoli_galE/prfC | SBRG_Ecoli_galE/peptide chain release factor 3 |
| ? | NC_002947 | 5066251 = | 8 (0.450) | intergenic (‑421/‑70) | PP_4458/PP_4459 | opine ABC transporter substrate‑binding protein/transposase | |||||
| * | ? | NC_002947 | = 1015854 | 0 (0.000) | 14 (0.820) | 13/234 | NT | 73.7% | intergenic (‑81/‑687) | SBRG_Ecoli_galE/prfC | SBRG_Ecoli_galE/peptide chain release factor 3 |
| ? | NC_002947 | = 5067412 | 10 (0.590) | coding (1092/1098 nt) | PP_4459 | transposase | |||||
| * | ? | NC_002947 | 2477094 = | 5 (0.280) | 5 (0.420) | 3/166 | NT | 65.0% | intergenic (+6/+143) | PP_2166/PP_2167 | anti‑anti‑sigma factor/PhoD‑like phosphatase |
| ? | NC_002947 | 2477218 = | 2 (0.170) | intergenic (+130/+19) | PP_2166/PP_2167 | anti‑anti‑sigma factor/PhoD‑like phosphatase | |||||
| * | ? | NC_002947 | = 4813173 | 0 (0.000) | 16 (1.080) | 6/204 | NT | 51.6% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5993954 | 30 (2.030) | intergenic (+243/‑303) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||