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 278,744 +A intergenic (‑239/+75) PP_0224 ← / ← sctC DszC family monooxygenase/sulfur compound ABC transporter ATP‑binding protein
RA 307,866 +C intergenic (+881/‑988) hslO → / → PP_0254 molecular chaperone HslO/hypothetical protein
RA 336,125 +T coding (210/237 nt) PP_0278 → hypothetical protein
RA 353,067 A→G intergenic (+34/+84) hisF → / ← cbcV imidazole glycerol phosphate synthase subunit HisF/choline/betaine/carnitine ABC transporter ATP binding protein
RA 499,203 A→G intergenic (+47/‑249) uhpA → / → PP_0411 two‑component system response regulator UhpA/polyamine ABC transporter ATP‑binding protein
RA 1,070,248 +GA intergenic (+48/+94) aroP‑I → / ← PP_0928 aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein
RA 1,126,647 +C intergenic (‑101/+48) tdcG‑II ← / ← gcvP‑I L‑serine dehydratase/glycine dehydrogenase
RA 1,419,549 +C intergenic (‑38/+98) PP_1242 ← / ← PP_1244 hypothetical protein/hypothetical protein
RA 1,499,480 2 bp→AC intergenic (+57/‑106) trpS → / → zapE tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein
RA 1,499,508 +C intergenic (+85/‑79) trpS → / → zapE tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein
RA 1,932,640 +C intergenic (‑107/+43) rluA ← / ← minE bifunctional tRNA pseudouridine(32) synthase TrmQ/ribosomal large subunit pseudouridine synthase RluA/cell division topological specificity factor
RA 2,328,326 C→T M1M (ATG→ATA) † PP_2046 ← LysR family transcriptional regulator
RA 2,958,523 C→T A428V (GCA→GTA)  PP_2589 → aldehyde dehydrogenase family protein
RA 3,845,705 +G intergenic (‑72/+26) PP_3394 ← / ← PP_3395 3‑hydroxy‑3‑methylglutaryl‑CoA lyase/LysR family transcriptional regulator
RA 3,951,159 T→C intergenic (‑123/+72) PP_3486 ← / ← PP_3487 cytochrome c/hypothetical protein
RA 3,951,161 A→T intergenic (‑125/+70) PP_3486 ← / ← PP_3487 cytochrome c/hypothetical protein
RA 4,345,003 A→G E193E (GAA→GAG)  PP_3818 → phosphate‑binding protein
RA 4,586,030 2 bp→TC intergenic (+113/+101) PP_4061 → / ← PP_4063 hypothetical protein/long‑chain fatty acid‑‑CoA ligase
RA 4,586,035 +G intergenic (+118/+97) PP_4061 → / ← PP_4063 hypothetical protein/long‑chain fatty acid‑‑CoA ligase
RA 4,586,057 +C intergenic (+140/+75) PP_4061 → / ← PP_4063 hypothetical protein/long‑chain fatty acid‑‑CoA ligase
RA 4,740,811 (T)7→6 intergenic (+48/+705) gltA → / ← yeiW citrate synthase/putative oxidoreductase
RA 4,740,816 T→G intergenic (+53/+700) gltA → / ← yeiW citrate synthase/putative oxidoreductase
RA 4,740,819 2 bp→CT intergenic (+56/+696) gltA → / ← yeiW citrate synthase/putative oxidoreductase
RA 4,741,255 C→T intergenic (+492/+261) gltA → / ← yeiW citrate synthase/putative oxidoreductase
RA 4,741,257 A→C intergenic (+494/+259) gltA → / ← yeiW citrate synthase/putative oxidoreductase
RA 4,741,261 A→C intergenic (+498/+255) gltA → / ← yeiW citrate synthase/putative oxidoreductase
RA 4,741,263 A→C intergenic (+500/+253) gltA → / ← yeiW citrate synthase/putative oxidoreductase
RA 4,741,272 A→G intergenic (+509/+244) gltA → / ← yeiW citrate synthase/putative oxidoreductase
RA 4,741,274 A→C intergenic (+511/+242) gltA → / ← yeiW citrate synthase/putative oxidoreductase
RA 4,741,276 G→C intergenic (+513/+240) gltA → / ← yeiW citrate synthase/putative oxidoreductase
RA 4,741,278 C→T intergenic (+515/+238) gltA → / ← yeiW citrate synthase/putative oxidoreductase
RA 4,741,283 +T intergenic (+520/+233) gltA → / ← yeiW citrate synthase/putative oxidoreductase
RA 4,741,289 C→G intergenic (+526/+227) gltA → / ← yeiW citrate synthase/putative oxidoreductase
RA 4,741,292 C→T intergenic (+529/+224) gltA → / ← yeiW citrate synthase/putative oxidoreductase
RA 4,741,294 C→G intergenic (+531/+222) gltA → / ← yeiW citrate synthase/putative oxidoreductase
RA 4,741,296 A→C intergenic (+533/+220) gltA → / ← yeiW citrate synthase/putative oxidoreductase
RA 4,741,298 C→T intergenic (+535/+218) gltA → / ← yeiW citrate synthase/putative oxidoreductase
JC 4,980,585 +GGC intergenic (‑24/+44) PP_4387 ← / ← flgE hypothetical protein/flagellar hook protein FlgE
JC 5,555,608 +GCC intergenic (‑84/+87) PP_4887 ← / ← PP_4888 hypothetical protein/methyl‑accepting chemotaxis transducer
RA 5,674,751 +G intergenic (+113/+27) rhlE‑II → / ← yceI ATP‑dependent RNA helicase/polyisoprene‑binding acidic stress response factor
RA 5,674,753 G→C intergenic (+115/+25) rhlE‑II → / ← yceI ATP‑dependent RNA helicase/polyisoprene‑binding acidic stress response factor
JC 5,681,415 +CGGG intergenic (‑133/+71) PP_4986 ← / ← PP_4987 hemolysin III family channel protein/putative Chemotaxis protein
RA 5,740,555 C→T S175N (AGC→AAC)  PP_5037 ← lipocalin family lipoprotein
RA 6,013,885 T→C intergenic (+90/+20) xpt → / ← PP_5266 xanthine phosphoribosyltransferase/acetyl‑CoA hydrolase family protein

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ NC_002947 171354–172964 176321–175389 2426–4968 68 [63] [67] 68 PP_16SA–[PP_5SA] PP_16SA,PP_23SA,[PP_5SA]
* * ÷ NC_002947 176629–178394 181720–180819 2426–5092 71 [67] [64] 69 PP_16SB–[PP_r01] PP_16SB,PP_23SB,[PP_r01]
* * ÷ NC_002947 528012–528566 529633–528949 384–1622 68 [65] [65] 68 PP_23SC 23S ribosomal RNA
* * ÷ NC_002947 699766–701654 702687–702037 384–2922 69 [63] [64] 68 [PP_23SD] [PP_23SD]
* * ÷ NC_002947 741546–742218 743310–742548 331–1765 69 [64] [66] 69 [PP_0635] [PP_0635]
* * ÷ NC_002947 745008–745904 746871–746028 125–1864 69 [66] [65] 68 [PP_0637]–[PP_0638] [PP_0637],[PP_0638]
* * ÷ NC_002947 1296542–1297218 1298476–1297481 264–1935 68 [65] [66] 71 PP_1133 PP_1133
* * ÷ NC_002947 1327182–1328831 1330442–1329503 673–3261 71 [67] [67] 68 PP_23SE–[PP_5SE] PP_23SE,[PP_5SE]
* * ÷ NC_002947 1425746–1427528 1427528 1–1783 68 [63] [66] 70 PP_1250 PP_1250
* * ÷ NC_002947 1440067–1440733 1441990–1440996 264–1924 70 [64] [67] 68 PP_1260 PP_1260
* * ÷ NC_002947 1757110 1757450 341 70 [67] [67] 68 PP_1563 terminase large subunit
* * ÷ NC_002947 1819885–1821653 1821653 1–1769 68 [67] [64] 68 [PP_1624] [PP_1624]
* * ÷ NC_002947 2085841–2087118 2087118 1–1278 69 [67] [66] 68 [PP_1865] [PP_1865]
* * ÷ NC_002947 2256599–2258146 2258146 1–1548 68 [66] [66] 71 PP_1990 PP_1990
* * ÷ NC_002947 2413060–2414409 2414409 1–1350 71 [67] [65] 68 [PP_2114] [PP_2114]
* * ÷ NC_002947 2443193 2443364 172 68 [66] [67] 69 topA DNA topoisomerase I
* * ÷ NC_002947 2529182–2530835 2530835 1–1654 68 [66] [67] 68 PP_2218–[PP_2219] PP_2218,[PP_2219]
* * ÷ NC_002947 2551389–2552231 2553862–2552903 673–2474 69 [67] [67] 68 [PP_23SF]–[PP_5SF] [PP_23SF],[PP_5SF]
* * ÷ NC_002947 2869336–2870657 2870657 1–1322 68 [65] [67] 68 [PP_2522] [PP_2522]
* * ÷ NC_002947 2937742–2938386 2939325–2938649 264–1584 69 [65] [67] 69 [PP_2570] [PP_2570]
* * ÷ NC_002947 3522882–3523556 3525125–3524454 899–2244 68 [67] [67] 68 PP_3113–[PP_3115] PP_3113,PP_3114,[PP_3115]
* * ÷ NC_002947 3826320–3827308 3828233–3827571 264–1914 69 [63] [67] 69 PP_3381 PP_3381
* * ÷ NC_002947 3969345–3970012 3971565–3970916 905–2221 68 [67] [66] 70 PP_3499–[PP_3501] PP_3499,PP_3500,[PP_3501]
* * ÷ NC_002947 4073736–4074746 4075676–4075009 264–1941 68 [67] [66] 69 PP_3586 PP_3586
* * ÷ NC_002947 4391607–4392366 4393377–4392696 331–1771 68 [67] [65] 69 [PP_3868] [PP_3868]
* * ÷ NC_002947 4486368–4487042 4488615–4487946 905–2248 68 [66] [66] 68 PP_3979–[PP_3981] PP_3979,PP_3980,[PP_3981]
* * ÷ NC_002947 4493408–4494074 4495653–4494972 899–2246 68 [67] [67] 68 [PP_3984]–PP_3986 [PP_3984],PP_3985,PP_3986
* * ÷ NC_002947 4536281–4537136 4538172–4537260 125–1892 68 [65] [65] 71 PP_4024–[PP_4025] PP_4024,[PP_4025]
* * ÷ NC_002947 4908270–4909544 4909544 1–1275 68 [66] [67] 70 [PP_4318] [PP_4318]
* * ÷ NC_002947 5033220–5033891 5035441–5034795 905–2222 68 [66] [67] 69 PP_4437–[PP_4439] PP_4437,PP_4438,[PP_4439]
* * ÷ NC_002947 5036170–5036750 5038392–5037885 1136–2223 70 [67] [62] 68 PP_4441–[PP_4443] PP_4441,PP_4442,[PP_4443]
* * ÷ NC_002947 5222636–5223628 5224555–5223891 264–1920 68 [66] [66] 70 PP_4603 PP_4603
* * ÷ NC_002947 5307657–5308403 5310700–5309075 673–3044 69 [65] [64] 68 PP_23SG PP_23SG
* * ÷ NC_002947 5401816–5402730 5403718–5402854 125–1903 68 [67] [67] 68 [PP_4745]–PP_4746 [PP_4745],PP_4746
* * ÷ NC_002947 5453081–5453747 5454631–5454010 264–1551 71 [67] [66] 68 [PP_4791] [PP_4791]
* * ÷ NC_002947 6152993–6153498 6155212–6154633 1136–2220 70 [67] [67] 69 [PP_5396]–PP_5398 [PP_5396],PP_5397,PP_5398