breseq  version 0.33.1  revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Predicted mutations
evidence position mutation annotation gene description
RA 188,837 C→T R316C (CGC→TGC)  PP_0165 → GGDEF domain‑containing protein
RA 233,545 C→T G548G (GGC→GGT)  PP_0180 → cytochrome c family protein
RA 476,133 A→T Q141L (CAG→CTG)  tsaD → tRNA N6‑adenosine(37)‑threonylcarbamoyltransferase complex transferase subunit TsaD
RA 1,011,323 +T intergenic (‑258/+192) PP_0871 ← / ← SBRG_Ecoli_galM glycine betaine/carnitine/choline ABC transporter permease/SBRG_Ecoli_galM
RA 1,167,912 +A coding (725/1344 nt) oprB‑I → carbohydrate‑selective porin
MC JC 1,515,811 (33-bp)2→1 pseudogene (715‑747/1851 nt) PP_1325 ← putative lipoprotein
RA 1,856,513 A→G D203G (GAT→GGT)  relA → ATP:GTP 3'‑pyrophosphotransferase
RA 4,018,201 G→A intergenic (+144/‑36) mvaB → / → PP_mr44 hydroxymethylglutaryl‑CoA lyase/CrcZ ncRNA
RA 4,746,222 +C intergenic (+464/+288) gltA → / ← yeiW citrate synthase/putative oxidoreductase
RA 4,746,224 A→G intergenic (+466/+286) gltA → / ← yeiW citrate synthase/putative oxidoreductase
RA 4,746,226 C→T intergenic (+468/+284) gltA → / ← yeiW citrate synthase/putative oxidoreductase
RA 4,746,229 C→T intergenic (+471/+281) gltA → / ← yeiW citrate synthase/putative oxidoreductase
RA 4,746,232 C→G intergenic (+474/+278) gltA → / ← yeiW citrate synthase/putative oxidoreductase
RA 4,746,234 2 bp→CT intergenic (+476/+275) gltA → / ← yeiW citrate synthase/putative oxidoreductase
RA 4,746,248 C→T intergenic (+490/+262) gltA → / ← yeiW citrate synthase/putative oxidoreductase
RA 4,746,250 A→C intergenic (+492/+260) gltA → / ← yeiW citrate synthase/putative oxidoreductase
RA 4,746,253 2 bp→GC intergenic (+495/+256) gltA → / ← yeiW citrate synthase/putative oxidoreductase

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ NC_002947 15763 15899 137 2 [1] [1] 2 gyrB/PP_5421 DNA gyrase subunit B/hypothetical protein
* * ÷ NC_002947 17135 17196 62 3 [1] [1] 3 PP_5421 hypothetical protein
* * ÷ NC_002947 22085 22110 26 2 [1] [1] 2 PP_0016 hypothetical protein
* * ÷ NC_002947 25293 25409 117 3 [1] [1] 2 PP_0020 hypothetical protein
* * ÷ NC_002947 28010 28138 129 2 [1] [1] 5 PP_0024 membrane‑associated metal‑dependent hydrolase
* * ÷ NC_002947 33251 33310 60 2 [1] [1] 2 czcR‑I heavy metal two‑component system response regulator
* * ÷ NC_002947 37284 37392 109 2 [1] [1] 2 PP_0033 undecaprenyl‑glycosyl transferase
* * ÷ NC_002947 38772 38804 33 2 [1] [1] 2 PP_0035 bactoprenol‑linked glycose transferase
* * ÷ NC_002947 39387 39550 164 2 [1] [0] 3 PP_0036 transcriptional regulator
* * ÷ NC_002947 56560 56577 18 2 [1] [1] 7 PP_0049 hypothetical protein
* * ÷ NC_002947 97575 97611 37 2 [1] [1] 3 [PP_0091] [PP_0091]
* * ÷ NC_002947 170752 170939–170883 132–188 2 [1] [1] 2 [PP_0159] [PP_0159]
* * ÷ NC_002947 171390–172965 176287–172973 9–4898 2 [1] [0] 2 [PP_16SA]–[PP_5SA] [PP_16SA],PP_23SA,[PP_5SA]
* * ÷ NC_002947 176644–178395 181723–178403 9–5080 2 [1] [1] 2 PP_16SB–[PP_r01] PP_16SB,PP_23SB,[PP_r01]
* * ÷ NC_002947 218109 218147 39 2 [1] [1] 2 PP_0168 putative surface adhesion protein
* * ÷ NC_002947 220506 220630 125 2 [1] [1] 2 [PP_0168] [PP_0168]
* * ÷ NC_002947 235321 235380 60 3 [1] [0] 2 PP_0183/argH glutathione S‑transferase/argininosuccinate lyase
* * ÷ NC_002947 284569 284638 70 2 [1] [1] 2 [atsK] [atsK]
* * ÷ NC_002947 315997 316047 51 2 [1] [1] 2 cysQ/PP_0262 3'(2'),5'‑bisphosphate nucleotidase CysQ/hypothetical protein
* * ÷ NC_002947 353094 353127 34 2 [1] [1] 2 hisF/cbcV imidazole glycerol phosphate synthase subunit HisF/choline/betaine/carnitine ABC transporter ATP binding protein
* * ÷ NC_002947 358079 358095 17 2 [1] [1] 3 tdcG‑I/PP_5441 L‑serine dehydratase/hypothetical protein
* * ÷ NC_002947 445058 445175 118 2 [1] [1] 2 PP_0367/PP_0368 hypothetical protein/acyl‑CoA dehydrogenase
* * ÷ NC_002947 524141 524228 88 2 [1] [1] 2 tyrS/PP_16SC tyrosine‑‑tRNA ligase/16S ribosomal RNA
* * ÷ NC_002947 524376 524393 18 2 [1] [0] 2 tyrS/PP_16SC tyrosine‑‑tRNA ligase/16S ribosomal RNA
* * ÷ NC_002947 534039 534072 34 2 [0] [1] 2 [PP_t04] [PP_t04]
* * ÷ NC_002947 537106 537183 78 2 [1] [1] 2 rplL 50S ribosomal protein L7/L12
* * ÷ NC_002947 544533 544695 163 2 [1] [1] 2 rpoC DNA‑directed RNA polymerase subunit beta'
* * ÷ NC_002947 548860 548903 44 2 [1] [1] 3 fusA elongation factor G 1
* * ÷ NC_002947 661630 661652 23 2 [1] [0] 2 PP_0569 MATE efflux family protein
* * ÷ NC_002947 668082 668105 24 5 [0] [1] 2 yfhM/PP_0571 lipoprotein/membrane protein
* * ÷ NC_002947 681230 681333 104 2 [1] [0] 3 [PP_0583]–[PP_0584] [PP_0583],[PP_0584]
* * ÷ NC_002947 703580 703608 29 4 [1] [1] 2 PP_0598 paraquat‑inducible protein A
* * ÷ NC_002947 706356 706364 9 2 [1] [1] 2 PP_0599 paraquat‑inducible protein B
* * ÷ NC_002947 718452 718482 31 2 [1] [1] 3 thiO/PP_0613 FAD‑dependent glycine/D‑amino acid oxidase/amidase family protein
* * ÷ NC_002947 749550 749647 98 3 [1] [1] 2 PP_0639 hypothetical protein
* * ÷ NC_002947 796833 796888 56 2 [1] [0] 2 PP_0681/PP_0682 hypothetical protein/inner membrane protein
* * ÷ NC_002947 863895 863934 40 3 [1] [1] 2 [uraA] [uraA]
* * ÷ NC_002947 867970 867999 30 2 [1] [1] 2 PP_0750/mqo‑I hypothetical protein/malate:quinone oxidoreductase
* * ÷ NC_002947 883817 883872 56 2 [1] [0] 2 PP_0766/PP_0767 hypothetical protein/LuxR family transcriptional regulator
* * ÷ NC_002947 951107 951216 110 3 [1] [1] 2 [cyoA]–[cyoB] [cyoA],[cyoB]
* * ÷ NC_002947 951347 951443 97 2 [1] [1] 2 cyoB cytochrome bo terminal oxidase subunit I
* * ÷ NC_002947 952006 952112 107 2 [1] [1] 2 cyoB cytochrome bo terminal oxidase subunit I
* * ÷ NC_002947 956559 956638 80 2 [1] [1] 2 [alaC] [alaC]
* * ÷ NC_002947 1010190 1010259 70 2 [1] [1] 2 PP_0870 glycine betaine/carnitine/choline ABC transporter substrate‑binding protein
* * ÷ NC_002947 1030245 1030273 29 2 [1] [0] 2 opdP/dppA‑II glycine‑glutamate dipeptide porin/dipeptide ABC transporter substrate‑binding protein
* * ÷ NC_002947 1104305 1104327 23 2 [1] [1] 3 kdsD D‑arabinose 5‑phosphate isomerase
* * ÷ NC_002947 1118727 1118796 70 2 [1] [1] 2 [hupN] [hupN]
* * ÷ NC_002947 1129499 1129517 19 2 [0] [1] 2 gcvT‑I aminomethyltransferase
* * ÷ NC_002947 1161290 1161310 21 2 [0] [0] 2 PP_1013/yihS sensor histidine kinase/aldose‑ketose isomerase
* * ÷ NC_002947 1229555 1229695 141 2 [1] [1] 2 [gltK]–[gltJ] [gltK],[gltJ]
* * ÷ NC_002947 1230586 1230619 34 2 [1] [1] 2 gltI glutamate/aspartate ABC transporter substrate‑binding protein
* * ÷ NC_002947 1258657 1258684 28 2 [0] [1] 2 metG methionine‑‑tRNA ligase
* * ÷ NC_002947 1263345 1263367 23 2 [1] [0] 2 PP_1102 hypothetical protein
* * ÷ NC_002947 1280760 1280778 19 3 [0] [1] 2 PP_5463/PP_5464 hypothetical protein/hypothetical protein
* * ÷ NC_002947 1289735 1289769 35 2 [1] [1] 2 PP_1122 OmpA family protein
* * ÷ NC_002947 1309350 1309423 74 2 [0] [0] 2 livM branched‑chain amino acid ABC transporter permease
* * ÷ NC_002947 1363719 1363775 57 2 [0] [1] 3 PP_1183 siderophore biosynthesis protein
* * ÷ NC_002947 1408545 1408561 17 2 [0] [0] 2 PP_1227/PP_1228 membrane protein/methyl‑accepting chemotaxis transducer
* * ÷ NC_002947 1414056 1414084 29 2 [1] [0] 3 PP_1230/nadA hypothetical protein/quinolinate synthase iron‑sulfur cluster subunit
* * ÷ NC_002947 1423170 1423246 77 2 [0] [1] 2 [purC] [purC]
* * ÷ NC_002947 1424530 1424541 12 2 [1] [1] 7 PP_1242/PP_1244 hypothetical protein/hypothetical protein
* * ÷ NC_002947 1469140 1469201 62 2 [0] [1] 2 algX alginate biosynthesis protein AlgX
* * ÷ NC_002947 1504429 1504483 55 2 [1] [0] 2 trpS/zapE tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein
* * ÷ NC_002947 1549433 1549505 73 2 [1] [1] 4 mdfA/ampG multidrug MFS transporter/muropeptide permease AmpG
* * ÷ NC_002947 1597590 1597635 46 2 [1] [1] 2 PP_1397 hypothetical protein
* * ÷ NC_002947 1640679 1640696 18 2 [1] [1] 2 era/recO GTPase Era/DNA repair protein RecO
* * ÷ NC_002947 1644542 1644604 63 2 [1] [1] 2 czcR‑III/PP_1439 response regulator/hypothetical protein
* * ÷ NC_002947 1646226 1646244 19 5 [0] [1] 3 cmoA tRNA 5‑methoxyuridine(34)/uridine‑5‑oxyacetic acid(34) metyltransferase CmoA
* * ÷ NC_002947 1647309 1647360 52 2 [1] [1] 2 [lon‑I] [lon‑I]
* * ÷ NC_002947 1680057 1680099 43 2 [1] [1] 2 hom homoserine dehydrogenase
* * ÷ NC_002947 1709602 1709656 55 2 [1] [1] 2 [PP_1498]–[PP_1499] [PP_1498],[PP_1499]
* * ÷ NC_002947 1785068 1785081 14 4 [0] [0] 2 PP_1587/dapC NhaP‑type Na+(K+)/H+ antiporter/N‑succinyl‑L,L‑diaminopimelate aminotransferase
* * ÷ NC_002947 1926515 1926580 66 2 [1] [1] 3 [PP_1720]–[PP_1721] [PP_1720],[PP_1721]
* * ÷ NC_002947 1935369 1935435 67 2 [1] [1] 2 [apeB] [apeB]
* * ÷ NC_002947 1984672 1984717 46 2 [1] [1] 2 rpsA 30S ribosomal protein S1
* * ÷ NC_002947 1993928 1993980 53 2 [1] [1] 2 PP_1780 mannosyltransferase
* * ÷ NC_002947 2012037 2012324 288 2 [1] [1] 2 PP_1790 acylneuraminate cytidylyltransferase
* * ÷ NC_002947 2015167 2015303 137 2 [1] [0] 3 PP_1792 group 2 family glycosyl transferase
* * ÷ NC_002947 2036249 2036355 107 2 [1] [1] 2 [PP_1806] [PP_1806]
* * ÷ NC_002947 2036688 2036820 133 2 [1] [1] 3 kdsA‑II 2‑dehydro‑3‑deoxyphosphooctonate aldolase
* * ÷ NC_002947 2040386 2040627 242 3 [1] [1] 2 [PP_5477] [PP_5477]
* * ÷ NC_002947 2043214 2043311 98 2 [1] [1] 2 PP_mr27/rffE C4 ncRNA/UDP‑N‑acetylglucosamine‑2‑epimerase
* * ÷ NC_002947 2068190 2068206 17 2 [1] [0] 2 PP_1838/PP_1839 membrane protein/hypothetical protein
* * ÷ NC_002947 2100186 2100200 15 2 [1] [1] 2 htpX/alaA protease HtpX/glutamate‑pyruvate aminotransferase
* * ÷ NC_002947 2104932 2105002 71 2 [1] [1] 3 PP_1875/PP_1876 two‑component system sensor histidine kinase/response regulator/AAA family ATP/GTP‑binding protein
* * ÷ NC_002947 2108218 2108236 19 2 [0] [1] 2 PP_t24/PP_1879 tRNA‑Gly/hypothetical protein
* * ÷ NC_002947 2131648 2132012 365 3 [1] [1] 2 PP_1887 hypothetical protein
* * ÷ NC_002947 2171729 2171743 15 2 [1] [1] 2 PP_5483/PP_1921 hypothetical protein/hypothetical protein
* * ÷ NC_002947 2182804 2182930 127 2 [1] [1] 2 PP_1931 hypothetical protein
* * ÷ NC_002947 2186763 2186798 36 2 [1] [1] 2 PP_1935 Cro/CI family transcriptional regulator
* * ÷ NC_002947 2189306 2189369 64 2 [1] [0] 2 PP_5490 site‑specific DNA recombinase
* * ÷ NC_002947 2191399 2191622 224 3 [1] [1] 2 PP_1936 membrane protein
* * ÷ NC_002947 2191851 2191870 20 2 [1] [1] 2 PP_1936 membrane protein
* * ÷ NC_002947 2196687 2196791 105 4 [1] [1] 2 PP_1937 helicase
* * ÷ NC_002947 2204007 2204032 26 2 [1] [1] 2 purU‑III formyltetrahydrofolate deformylase
* * ÷ NC_002947 2214057 2214111 55 2 [1] [1] 2 PP_1952 metallo‑beta‑lactamase family protein
* * ÷ NC_002947 2215506 2215609 104 3 [1] [1] 2 [PP_1953]–[PP_1954] [PP_1953],[PP_1954]
* * ÷ NC_002947 2215754 2216100 347 2 [1] [0] 2 PP_1954 hypothetical protein
* * ÷ NC_002947 2217064 2217080 17 3 [1] [1] 2 PP_1955 cytochrome P450 family protein
* * ÷ NC_002947 2220662 2220747 86 2 [1] [1] 3 PP_1957/PP_5493 Pdr/VanB family oxidoreductase/hypothetical protein
* * ÷ NC_002947 2224618 2224663 46 2 [1] [1] 2 PP_1959 hypothetical protein
* * ÷ NC_002947 2246245 2246340 96 2 [0] [1] 2 [gltX] [gltX]
* * ÷ NC_002947 2295332 2295475 144 6 [1] [1] 3 [pepN] [pepN]
* * ÷ NC_002947 2299008 2299018 11 2 [1] [1] 2 PP_2020 lipoprotein
* * ÷ NC_002947 2405510 2405548 39 3 [1] [1] 2 evgA/dgt two‑component system response regulator/deoxyguanosinetriphosphate triphosphohydrolase‑like protein
* * ÷ NC_002947 2434859 2434927 69 2 [1] [1] 2 [PP_2129] [PP_2129]
* * ÷ NC_002947 2461845 2461863 19 2 [1] [1] 2 gapB/PP_2150 glyceraldehyde‑3‑phosphate dehydrogenase/thiamine biosynthesis lipoprotein
* * ÷ NC_002947 2477167 2477217 51 7 [0] [0] 17 PP_2166/PP_2167 anti‑anti‑sigma factor/PhoD‑like phosphatase
* * ÷ NC_002947 2479091 2479160 70 2 [1] [1] 4 PP_2167/tal PhoD‑like phosphatase/transaldolase
* * ÷ NC_002947 2483392 2483495 104 2 [0] [1] 2 PP_2172 hypothetical protein
* * ÷ NC_002947 2537811 2537947 137 2 [1] [0] 2 PP_2224 hypothetical protein
* * ÷ NC_002947 2551712 2551750 39 2 [0] [1] 2 PP_2238 metallopeptidase
* * ÷ NC_002947 2562877 2562911 35 2 [1] [1] 2 fepA ferric enterobactin transport system outer membrane subunit
* * ÷ NC_002947 2593862 2593898 37 2 [1] [1] 2 PP_2266 DNA‑directed RNA polymerase
* * ÷ NC_002947 2594050 2594182 133 2 [1] [1] 3 PP_2266 DNA‑directed RNA polymerase
* * ÷ NC_002947 2595321 2595442 122 2 [1] [1] 2 PP_2267 single‑stranded DNA‑binding protein
* * ÷ NC_002947 2595579 2595633 55 2 [1] [1] 2 [PP_2267] [PP_2267]
* * ÷ NC_002947 2605975 2606158 184 2 [1] [1] 2 PP_2279 head‑to‑tail joining protein
* * ÷ NC_002947 2610086 2610176 91 3 [1] [1] 2 PP_2283 tail tubular protein A
* * ÷ NC_002947 2621372 2621517 146 2 [1] [1] 2 PP_2288 tail fiber protein
* * ÷ NC_002947 2669033 2669077 45 3 [1] [1] 2 prpC/acnA‑II methylcitrate synthase/aconitate hydratase
* * ÷ NC_002947 2673022 2673048 27 2 [1] [0] 2 prpF/prpD aconitate isomerase/2‑methylcitrate dehydratase
* * ÷ NC_002947 2763901 2763951 51 2 [1] [0] 3 PP_2412 ParA family protein
* * ÷ NC_002947 2812482 2812495 14 4 [1] [0] 2 Nuh ribonucleoside hydrolase
* * ÷ NC_002947 2842047 2842159 113 2 [1] [1] 3 sad‑I/PP_2489 NAD+‑dependent succinate semialdehyde dehydrogenase/xenobiotic reductase
* * ÷ NC_002947 2861908 2861967 60 2 [1] [1] 2 PP_2509/PP_mr37 hypothetical protein/C4 ncRNA
* * ÷ NC_002947 2927218 2927236 19 2 [1] [0] 2 PP_2562 hypothetical protein
* * ÷ NC_002947 3031052 3031129 78 3 [1] [1] 2 PP_2641 iron‑sulfur cluster‑binding protein
* * ÷ NC_002947 3052199 3052244 46 2 [1] [1] 3 [PP_2660] [PP_2660]
* * ÷ NC_002947 3058160 3058282 123 2 [1] [1] 2 [PP_2664]–[agmR] [PP_2664],[agmR]
* * ÷ NC_002947 3059035 3059089 55 2 [0] [1] 2 PP_2666 hypothetical protein
* * ÷ NC_002947 3059716 3059811 96 2 [1] [1] 2 PP_2666/PP_2667 hypothetical protein/ABC transporter permease
* * ÷ NC_002947 3067200 3067237 38 3 [1] [1] 2 qedH‑I quinoprotein ethanol dehydrogenase
* * ÷ NC_002947 3110790 3110816 27 3 [1] [1] 2 PP_2716 arsenate reductase
* * ÷ NC_002947 3203441 3203516 76 2 [1] [1] 2 ethA FAD‑containing monooxygenase EthA
* * ÷ NC_002947 3204586 3204650 65 2 [1] [1] 2 PP_2806/PP_2807 TetR family transcriptional regulator/hypothetical protein
* * ÷ NC_002947 3299691 3299735 45 3 [1] [1] 2 PP_2894 hypothetical protein
* * ÷ NC_002947 3299909 3299946 38 2 [1] [1] 2 PP_2894 hypothetical protein
* * ÷ NC_002947 3311071 3311073 3 2 [1] [0] 2 PP_2906 sensor histidine kinase
* * ÷ NC_002947 3324095 3324152 58 2 [1] [1] 2 treSA/PP_2919 trehalose synthase A/LysR family transcriptional regulator
* * ÷ NC_002947 3354302 3354423 122 2 [0] [1] 2 PP_2944 sensor histidine kinase
* * ÷ NC_002947 3358848 3358876 29 2 [1] [0] 2 PP_2949 permease
* * ÷ NC_002947 3378034 3378062 29 4 [1] [1] 2 PP_2971 transposase
* * ÷ NC_002947 3380262 3380324 63 2 [1] [1] 2 PP_2974 sulfatase
* * ÷ NC_002947 3385436 3385566 131 2 [1] [1] 2 tnpT‑I cointegrate resolution protein T
* * ÷ NC_002947 3396804 3396853 50 2 [1] [1] 3 PP_2994 FMN‑binding oxidoreductase
* * ÷ NC_002947 3471809 3471856 48 2 [1] [1] 3 [PP_3081] [PP_3081]
* * ÷ NC_002947 3497094 3497101 8 3 [0] [0] 2 PP_3096 hypothetical protein
* * ÷ NC_002947 3523458 3523497 40 2 [0] [1] 3 PP_5579 hypothetical protein
* * ÷ NC_002947 3583193 3583258 66 4 [1] [1] 2 PP_3158 hypothetical protein
* * ÷ NC_002947 3586668 3586734 67 2 [1] [1] 2 PP_3160 hypothetical protein
* * ÷ NC_002947 3614769 3614839 71 2 [1] [1] 2 PP_3183 SCO1/SenC family protein
* * ÷ NC_002947 3615698 3615705 8 2 [1] [0] 2 mcoA Mn(II) copper oxidase A
* * ÷ NC_002947 3769909 3770002 94 2 [0] [1] 2 PP_3326/PP_3328 hypothetical protein/ring‑cleaving dioxygenase
* * ÷ NC_002947 3781339 3781432 94 3 [1] [1] 2 PP_3338/PP_3339 cytochrome bd‑type quinol oxidase/hypothetical protein
* * ÷ NC_002947 3850716 3850755 40 2 [0] [1] 2 [PP_3395] [PP_3395]
* * ÷ NC_002947 3893785 3893818 34 2 [1] [1] 3 [PP_3432] [PP_3432]
* * ÷ NC_002947 3902343 3902410 68 2 [1] [1] 3 PP_3440 hypothetical protein
* * ÷ NC_002947 3905560 3905572 13 2 [1] [1] 2 PP_3443 glyceraldehyde‑3‑phosphate dehydrogenase
* * ÷ NC_002947 3974362–3976520 3976520 1–2159 3 [1] [0] 3 [PP_3499]–[PP_3501] [PP_3499],PP_3500,[PP_3501]
* * ÷ NC_002947 4054901 4054919 19 5 [0] [1] 2 quiA/oprB‑III quinate dehydrogenase/carbohydrate‑selective porin
* * ÷ NC_002947 4084413 4084507 95 2 [1] [1] 2 sdaC/amaC serine:H+ symport permease/D‑lysine aminotransferase
* * ÷ NC_002947 4093533 4093576 44 3 [1] [1] 2 PP_3598 peptidase C26
* * ÷ NC_002947 4107867 4107914 48 2 [0] [1] 2 PP_3611 hypothetical protein
* * ÷ NC_002947 4117768 4117782 15 2 [0] [1] 2 PP_3618 hypothetical protein
* * ÷ NC_002947 4154985 4155077 93 4 [1] [1] 3 [PP_3654] [PP_3654]
* * ÷ NC_002947 4175171 4175209 39 2 [0] [0] 2 katG/PP_3669 catalase‑peroxidase/LysR family transcriptional regulator
* * ÷ NC_002947 4181542 4181591 50 2 [1] [1] 2 PP_3676 hypothetical protein
* * ÷ NC_002947 4181697 4181731 35 2 [1] [0] 2 PP_3676 hypothetical protein
* * ÷ NC_002947 4182417 4182516 100 2 [1] [1] 2 [PP_3676]–[PP_3677] [PP_3676],[PP_3677]
* * ÷ NC_002947 4182648 4182691 44 2 [1] [1] 2 PP_3677 hypothetical protein
* * ÷ NC_002947 4182820 4182917 98 2 [1] [1] 2 PP_3677 hypothetical protein
* * ÷ NC_002947 4184127 4184281 155 2 [1] [1] 2 PP_3677 hypothetical protein
* * ÷ NC_002947 4188324 4188373 50 3 [1] [1] 4 PP_3680 hypothetical protein
* * ÷ NC_002947 4199738 4199761 24 2 [0] [1] 2 PP_5617 hypothetical protein
* * ÷ NC_002947 4204471 4204505 35 2 [1] [0] 2 PP_3689/PP_3690 serine/threonine protein phosphatase/hypothetical protein
* * ÷ NC_002947 4209387 4209527 141 2 [1] [1] 2 PP_3691 DNA helicase‑related protein
* * ÷ NC_002947 4210282 4210305 24 2 [1] [1] 2 PP_3691 DNA helicase‑related protein
* * ÷ NC_002947 4211308 4211383 76 2 [1] [1] 4 PP_3691 DNA helicase‑related protein
* * ÷ NC_002947 4212033 4212142 110 2 [1] [0] 3 PP_3691 DNA helicase‑related protein
* * ÷ NC_002947 4213936 4214078 143 2 [1] [1] 2 PP_3692 hypothetical protein
* * ÷ NC_002947 4214481 4214542 62 2 [1] [1] 3 PP_3692 hypothetical protein
* * ÷ NC_002947 4216223 4216309 87 2 [0] [1] 2 PP_3693 transcriptional regulator MvaT
* * ÷ NC_002947 4218861 4218933 73 2 [1] [1] 2 PP_3696 hypothetical protein
* * ÷ NC_002947 4223888 4223995 108 2 [1] [1] 2 PP_3698 hypothetical protein
* * ÷ NC_002947 4225237 4225256 20 2 [0] [1] 2 PP_3699 hypothetical protein
* * ÷ NC_002947 4301188 4301249 62 2 [1] [1] 2 PP_3765/gloA H‑NS family protein MvaT/lactoylglutathione lyase
* * ÷ NC_002947 4315648 4315693 46 2 [1] [1] 2 syrB syringomycin biosynthesis protein 2
* * ÷ NC_002947 4316084 4316425 342 2 [1] [1] 2 [syrB]–[PP_3784] [syrB],[PP_3784]
* * ÷ NC_002947 4321998 4322005 8 2 [0] [0] 2 PP_3788 non‑ribosomal peptide synthetase
* * ÷ NC_002947 4326581 4326637 57 2 [1] [1] 2 PP_5629 protease/amidase
* * ÷ NC_002947 4326943 4327041 99 2 [1] [1] 2 [PP_3792] [PP_3792]
* * ÷ NC_002947 4343462 4343502 41 2 [1] [1] 3 PP_3812/PP_5632 lipase/allo‑isoleucine metabolism protein
* * ÷ NC_002947 4345044 4345117 74 3 [0] [0] 2 ribAB‑II/PP_3814 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein
* * ÷ NC_002947 4349310 4349339 30 4 [1] [1] 3 PP_3817/PP_3818 polyamine ABC transporter ATP‑binding protein/phosphate‑binding protein
* * ÷ NC_002947 4358169 4358191 23 3 [1] [0] 4 yrpB 2‑nitropropane dioxygenase
* * ÷ NC_002947 4376577 4376702 126 2 [1] [1] 2 PP_5636/PP_3849 hypothetical protein/hemolysin‑type calcium‑binding protein
* * ÷ NC_002947 4378553 4378566 14 2 [1] [0] 3 PP_3849 hemolysin‑type calcium‑binding protein
* * ÷ NC_002947 4474061 4474107 47 3 [1] [1] 3 PP_3959 voltage‑gated chloride channel family protein
* * ÷ NC_002947 4489590 4489656 67 2 [1] [1] 2 PP_3976/PP_3977 isochorismatase family hydrolase/hypothetical protein
* * ÷ NC_002947 4491420–4493569 4493569 1–2150 2 [1] [1] 2 [PP_3979]–[PP_3981] [PP_3979],PP_3980,[PP_3981]
* * ÷ NC_002947 4496887 4497075 189 3 [1] [1] 2 PP_3982/PP_3983 hypothetical protein/hypothetical protein
* * ÷ NC_002947 4500951 4501014 64 3 [1] [1] 2 PP_3987 site‑specific recombinase
* * ÷ NC_002947 4505614 4505721 108 2 [1] [1] 2 PP_3989 DNA‑cytosine methyltransferase
* * ÷ NC_002947 4508726 4508799 74 2 [1] [1] 2 [xanP] [xanP]
* * ÷ NC_002947 4535016 4535044 29 2 [0] [1] 4 PP_4018/topB acetyltransferase/DNA topoisomerase III
* * ÷ NC_002947 4634801 4634826 26 2 [1] [1] 3 PP_4094 hypothetical protein
* * ÷ NC_002947 4645988 4646016 29 2 [0] [1] 2 gabP‑IV gamma‑aminobutyrate permease
* * ÷ NC_002947 4676074 4676098 25 2 [0] [0] 2 nuoN NADH‑quinone oxidoreductase subunit N
* * ÷ NC_002947 4680251 4680392 142 3 [1] [1] 2 [PP_4137] [PP_4137]
* * ÷ NC_002947 4722236 4722460 225 2 [1] [1] 2 [fabA]–[fabB] [fabA],[fabB]
* * ÷ NC_002947 4728277 4728332 56 2 [1] [1] 3 htpG chaperone protein HtpG
* * ÷ NC_002947 4734446 4734501 56 2 [0] [1] 3 sucC bifunctional succinyl‑CoA synthetase subunit beta/glutaryl‑CoA synthetase subunit beta
* * ÷ NC_002947 4801541 4801656 116 2 [1] [1] 2 [PP_4224] [PP_4224]
* * ÷ NC_002947 4813154 4813203 50 31 [0] [1] 2 PP_4234/dsbD‑II bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2
* * ÷ NC_002947 4821581 4821653 73 2 [1] [1] 4 PP_5669 ABC transporter ATP‑binding protein
* * ÷ NC_002947 4847877 4847932 56 3 [1] [1] 2 ccoP‑II/PP_4259 cbb3‑type cytochrome c oxidase subunit/iron‑sulfur cluster‑binding protein
* * ÷ NC_002947 4850156 4850209 54 3 [0] [1] 2 PP_4260/PP_4261 hypothetical protein/cation‑transporting P‑type ATPase
* * ÷ NC_002947 4857448 4857461 14 7 [0] [0] 2 recR/ybaB recombination protein RecR/nucleoid‑associated broad specificity regulator
* * ÷ NC_002947 4894577 4894656 80 2 [1] [1] 2 hyi/glxR hydroxypyruvate isomerase/2‑hydroxy‑3‑oxopropionate reductase
* * ÷ NC_002947 4901419 4901489 71 3 [1] [1] 2 PP_4304/sbp‑I VIC family cation transporter/sulfate ABC transporter substrate‑binding protein
* * ÷ NC_002947 4948175 4948235 61 2 [1] [1] 2 PP_4350 class V NifS/IscS family aminotransferase
* * ÷ NC_002947 4955957 4955992 36 2 [1] [1] 3 fliL/fliK flagellar protein FliL/flagellar hook‑length control protein FliK
* * ÷ NC_002947 4986537 4986593 57 2 [1] [1] 2 flgE flagellar hook protein FlgE
* * ÷ NC_002947 5008559 5008702 144 2 [1] [1] 2 [PP_4409]–[PP_4410] [PP_4409],[PP_4410]
* * ÷ NC_002947 5009831 5009984 154 2 [1] [1] 2 PP_4410 hypothetical protein
* * ÷ NC_002947 5020832 5020850 19 3 [1] [1] 2 PP_5679/PP_4421 hypothetical protein/aminotransferase
* * ÷ NC_002947 5021096 5021214 119 3 [1] [1] 2 PP_4421 aminotransferase
* * ÷ NC_002947 5024043 5024170 128 2 [1] [1] 2 [PP_4423] [PP_4423]
* * ÷ NC_002947 5025784 5025845 62 2 [1] [1] 2 [PP_4425] [PP_4425]
* * ÷ NC_002947 5029682 5029749 68 2 [1] [1] 2 PP_4429 GntR family transcriptional regulator
* * ÷ NC_002947 5034728 5034799 72 2 [1] [1] 2 PP_4433 amino acid MFS transporter
* * ÷ NC_002947 5037600 5037756 157 2 [1] [1] 2 PP_4435 hypothetical protein
* * ÷ NC_002947 5038242–5040421 5040421 1–2180 2 [1] [1] 2 [PP_4437]–[PP_4439] [PP_4437],PP_4438,[PP_4439]
* * ÷ NC_002947 5043692 5043763 72 2 [1] [1] 2 [PP_4444]–[PP_4445] [PP_4444],[PP_4445]
* * ÷ NC_002947 5055225 5055313 89 2 [0] [1] 2 PP_5686 hypothetical protein
* * ÷ NC_002947 5061362 5061513 152 2 [1] [1] 2 [ooxA] [ooxA]
* * ÷ NC_002947 5065622 5065696 75 2 [1] [1] 3 PP_4458 opine ABC transporter substrate‑binding protein
* * ÷ NC_002947 5071998 5072134 137 2 [1] [1] 2 PP_4464 LysR family transcriptional regulator
* * ÷ NC_002947 5078018 5078114 97 2 [1] [1] 2 PP_5689/PP_5690 hypothetical protein/hypothetical protein
* * ÷ NC_002947 5082897 5082952 56 2 [1] [1] 2 mgtE magnesium transporter
* * ÷ NC_002947 5102128 5102374 247 2 [1] [1] 2 [acsA‑I] [acsA‑I]
* * ÷ NC_002947 5104957 5104981 25 2 [1] [1] 2 PP_4488/phhR hypothetical protein/sigma‑54 dependent transcriptional regulator
* * ÷ NC_002947 5150149 5150261 113 2 [1] [1] 2 PP_4531 hypothetical protein
* * ÷ NC_002947 5167592 5167597 6 3 [0] [0] 4 PP_4544/PP_4545 hypothetical protein/beta‑ketodecanoyl‑ACP synthase
* * ÷ NC_002947 5178243 5178248 6 3 [0] [1] 2 fadD‑I/fadD‑II long‑chain‑fatty acid‑‑CoA ligase/long‑chain‑fatty acid‑‑CoA ligase
* * ÷ NC_002947 5197750 5197807 58 2 [1] [0] 3 PP_4572/PP_4573 hypothetical protein/AAA family ATPase
* * ÷ NC_002947 5204612 5204693 82 2 [1] [1] 2 [PP_4579] [PP_4579]
* * ÷ NC_002947 5215238 5215259 22 2 [1] [0] 2 rnd/PP_4592 ribonuclease D/metal dependent hydrolase
* * ÷ NC_002947 5261814 5261872 59 2 [0] [1] 2 [PP_5703] [PP_5703]
* * ÷ NC_002947 5262873 5262938 66 2 [1] [1] 2 PP_4634/PP_4635 alpha/beta family hydrolase/trans‑2‑enoyl‑CoA reductase
* * ÷ NC_002947 5265117 5265187 71 3 [1] [1] 2 yqeF acetyl‑CoA acetyltransferase
* * ÷ NC_002947 5279010 5279047 38 2 [1] [1] 2 rlmG/PP_4649 ribosomal RNA large subunit methyltransferase G/hypothetical protein
* * ÷ NC_002947 5349388 5349546 159 2 [1] [1] 2 [pgi‑II] [pgi‑II]
* * ÷ NC_002947 5378420 5378430 11 2 [0] [1] 2 PP_mr67/dapB P32 ncRNA/4‑hydroxy‑tetrahydrodipicolinate reductase
* * ÷ NC_002947 5382018 5382076 59 2 [1] [1] 2 dnaK chaperone protein DnaK
* * ÷ NC_002947 5395824 5395898 75 2 [0] [1] 2 PP_4739 hypothetical protein
* * ÷ NC_002947 5400762 5400823 62 2 [1] [1] 2 hsdM type I restriction modification system methylase
* * ÷ NC_002947 5402618 5402760 143 2 [1] [1] 2 hsdS type I restriction modification system specificity protein
* * ÷ NC_002947 5418287 5418310 24 2 [1] [0] 2 PP_4755 ferrichrome‑iron receptor
* * ÷ NC_002947 5490115 5490197 83 2 [1] [1] 2 purH/purD bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase/phosphoribosylamine‑‑glycine ligase
* * ÷ NC_002947 5511538 5511588 51 3 [1] [0] 2 [PP_4839] [PP_4839]
* * ÷ NC_002947 5543564 5543610 47 2 [0] [1] 3 PP_4871/PP_4872 lysine decarboxylase family protein/hypothetical protein
* * ÷ NC_002947 5547792 5547853 62 2 [1] [1] 2 [rplI] [rplI]
* * ÷ NC_002947 5560590 5560606 17 2 [0] [1] 2 PP_4887/PP_4888 hypothetical protein/methyl‑accepting chemotaxis transducer
* * ÷ NC_002947 5645280 5645285 6 4 [0] [0] 2 PP_4950/PP_4951 hypothetical protein/EmrB/QacA family drug resistance transporter
* * ÷ NC_002947 5657954 5657984 31 2 [1] [1] 2 PP_4961/PP_4962 lipoprotein/hypothetical protein
* * ÷ NC_002947 5660627 5660685 59 2 [0] [1] 2 epd/tktA D‑erythrose 4‑phosphate dehydrogenase/transketolase A
* * ÷ NC_002947 5676620 5676652 33 2 [1] [0] 2 PP_4978/PP_4979 hypothetical protein/substrate‑binding protein
* * ÷ NC_002947 5745452 5745499 48 3 [1] [1] 2 hutF/PP_5037 formiminoglutamate deiminase/lipocalin family lipoprotein
* * ÷ NC_002947 5756737 5756794 58 2 [1] [0] 2 thiI/glnA tRNA sulfurtransferase/glutamine synthetase
* * ÷ NC_002947 5902743 5902803 61 2 [1] [1] 2 PP_5172/PP_5173 hypothetical protein/RND family transporter
* * ÷ NC_002947 5908144 5908198 55 2 [0] [0] 2 PP_5175/PP_5176 HlyD family secretion protein/hypothetical protein
* * ÷ NC_002947 5908796 5908870 75 2 [1] [1] 2 [spuH] [spuH]
* * ÷ NC_002947 5925220 5925247 28 2 [1] [1] 2 PP_5190 type II secretion system protein
* * ÷ NC_002947 5989454 5989483 30 2 [0] [1] 2 PP_5242/ycaC‑II GAF domain‑containing sensor histidine kinase/putative hydrolase
* * ÷ NC_002947 6002192 6002202 11 3 [1] [0] 2 PP_5252/PP_5253 hypothetical protein/arylesterase
* * ÷ NC_002947 6005927 6005945 19 2 [0] [0] 2 PP_5256/amaA cyclic nucleotide‑binding protein/L‑pipecolate oxidase
* * ÷ NC_002947 6011580 6011591 12 2 [1] [1] 12 ydcJ/PP_5261 metalloprotein/LysR family transcriptional regulator
* * ÷ NC_002947 6014146 6014158 13 7 [1] [0] 2 norM/PP_5263 multidrug resistance protein NorM/GGDEF domain‑containing protein
* * ÷ NC_002947 6082845 6082917 73 3 [1] [1] 4 PP_5329/PP_5330 phosphate ABC transporter substrate‑binding protein/MFS transporter
* * ÷ NC_002947 6085913 6086043 131 2 [1] [1] 2 [PP_5332]–[PP_5333] [PP_5332],[PP_5333]
* * ÷ NC_002947 6103138 6103181 44 2 [1] [1] 2 PP_5730/PP_5350 hypothetical protein/RpiR family transcriptional regulator
* * ÷ NC_002947 6103385 6103403 19 4 [1] [0] 2 PP_5350 RpiR family transcriptional regulator
* * ÷ NC_002947 6147179 6147246 68 2 [1] [1] 2 cusA CzcA family RND family copper transporter
* * ÷ NC_002947 6149693 6149715 23 2 [1] [1] 2 PP_5735 hypothetical protein
* * ÷ NC_002947 6173325 6173462 138 2 [1] [1] 2 PP_5407 TnsD‑like transposition protein
* * ÷ NC_002947 6183076 6183257 182 2 [1] [1] 2 atpA ATP synthase subunit alpha
* * ÷ NC_002947 6185150 6185225 76 2 [1] [1] 2 [atpE] [atpE]

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_002947 = 65278516 (1.020)29 (2.180) 5/224 0.6 81.0% coding (1961/1962 nt) ctpL methyl‑accepting chemotaxis protein CtpL
?NC_002947 = 4813153 0 (0.000)intergenic (‑268/‑287) PP_4234/dsbD‑II bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2
* ? NC_002947 1015848 =0 (0.000)8 (0.510) 7/262 0.5 88.9% intergenic (‑75/‑693) SBRG_Ecoli_galE/prfC SBRG_Ecoli_galE/peptide chain release factor 3
?NC_002947 5066251 = 2 (0.130)intergenic (‑421/‑70) PP_4458/PP_4459 opine ABC transporter substrate‑binding protein/transposase
* ? NC_002947 = 10158541 (0.060)7 (0.460) 7/254 0.5 58.4% intergenic (‑81/‑687) SBRG_Ecoli_galE/prfC SBRG_Ecoli_galE/peptide chain release factor 3
?NC_002947 = 5067412 9 (0.600)coding (1092/1098 nt) PP_4459 transposase
* ? NC_002947 2477094 =2 (0.130)11 (0.990) 5/186 0.5 94.0% intergenic (+6/+143) PP_2166/PP_2167 anti‑anti‑sigma factor/PhoD‑like phosphatase
?NC_002947 2477218 = 0 (0.000)intergenic (+130/+19) PP_2166/PP_2167 anti‑anti‑sigma factor/PhoD‑like phosphatase