mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.29.0 revision 8f9c342918e4
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 33 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,705,984 | 0 | T | G | 43.3% | 239.5 / inf | 217 | intergenic (‑194/+114) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,705,985 | 0 | T | C | 43.3% | 197.3 / 285.6 | 217 | intergenic (‑195/+113) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,706,048 | 0 | G | T | 39.5% | 292.5 / 250.6 | 210 | intergenic (‑258/+50) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,705,970 | 0 | G | A | 36.0% | 257.6 / 180.9 | 178 | intergenic (‑180/+128) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,705,971 | 0 | C | A | 36.0% | 314.9 / 211.9 | 178 | intergenic (‑181/+127) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,706,017 | 0 | C | T | 35.2% | 278.0 / 186.9 | 210 | intergenic (‑227/+81) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,705,978 | 0 | A | C | 30.4% | 358.4 / 207.4 | 222 | intergenic (‑188/+120) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 2,644,289 | 0 | A | C | 29.7% | 237.8 / 154.2 | 166 | intergenic (‑6/+144) | rlmN/ndk | dual specificity 23S rRNA m(2)A2503, tRNA m(2)A37 methyltransferase, SAM‑dependent/multifunctional nucleoside diphosphate kinase and apyrimidinic endonuclease and 3'‑phosphodiesterase |
| * | NC_000913 | 3,706,029 | 0 | T | C | 27.6% | 325.7 / 135.6 | 209 | intergenic (‑239/+69) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 1,778,364 | 0 | C | T | 23.1% | 232.6 / 64.0 | 117 | intergenic (+17/+26) | ydiO/ydiP | putative acyl‑CoA dehydrogenase/putative DNA‑binding transcriptional regulator |
| * | NC_000913 | 1,778,367 | 0 | C | G | 23.1% | 270.8 / 83.2 | 117 | intergenic (+20/+23) | ydiO/ydiP | putative acyl‑CoA dehydrogenase/putative DNA‑binding transcriptional regulator |
| * | NC_000913 | 3,706,028 | 0 | T | C | 22.8% | 384.7 / 117.3 | 209 | intergenic (‑238/+70) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 1,792,240 | 0 | T | . | 22.7% | 303.9 / 85.3 | 114 | intergenic (‑220/+27) | ydiV/nlpC | anti‑FlhD4C2 factor, inactive EAL family phosphodiesterase/putative C40 clan peptidase lipoprotein |
| * | NC_000913 | 1,792,242 | 1 | . | A | 22.7% | 275.9 / 108.6 | 110 | intergenic (‑222/+25) | ydiV/nlpC | anti‑FlhD4C2 factor, inactive EAL family phosphodiesterase/putative C40 clan peptidase lipoprotein |
| * | NC_000913 | 922,321 | 0 | G | . | 22.2% | 319.2 / 96.5 | 117 | intergenic (+28/+45) | macB/cspD | macrolide ABC transporter peremase/ATPase/inhibitor of DNA replication, cold shock protein homolog |
| * | NC_000913 | 2,679,430 | 0 | G | . | 21.7% | 353.2 / 104.9 | 129 | intergenic (‑63/+34) | yphF/yphG | putative sugar ABC transporter periplasmic binding protein/DUF4380 domain‑containing TPR repeat protein |
| * | NC_000913 | 2,679,434 | 1 | . | C | 21.7% | 349.5 / 122.5 | 129 | intergenic (‑67/+30) | yphF/yphG | putative sugar ABC transporter periplasmic binding protein/DUF4380 domain‑containing TPR repeat protein |
| * | NC_000913 | 1,666,466 | 0 | T | G | 21.6% | 205.6 / 58.9 | 97 | Y384* (TAT→TAG) | clcB | H(+)/Cl(‑) exchange transporter |
| * | NC_000913 | 3,477,878 | 0 | T | A | 21.6% | 251.8 / 72.2 | 125 | intergenic (+20/+29) | slyX/slyD | phi X174 lysis protein/FKBP‑type peptidyl prolyl cis‑trans isomerase (rotamase) |
| * | NC_000913 | 1,666,468 | 0 | A | T | 21.4% | 213.7 / 53.2 | 99 | Q385L (CAG→CTG) | clcB | H(+)/Cl(‑) exchange transporter |
| Marginal new junction evidence (lowest skew 10 of 1085 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 228108 | NA (NA) | 51 (0.430) | 26/190 | 7.6 | 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 | 2729453 = | NA (NA) | 34 (0.310) | 21/178 | 8.6 | 67.8% | intergenic (‑9/+163) | gltW/rrsG | tRNA‑Glu/16S ribosomal RNA of rrnG operon |
| ? | NC_000913 | 2729475 = | 18 (0.150) | intergenic (‑31/+141) | gltW/rrsG | tRNA‑Glu/16S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | 2729955 = | NA (NA) | 58 (0.500) | 22/186 | 8.7 | NA | noncoding (1203/1542 nt) | rrsG | 16S ribosomal RNA of rrnG operon |
| ? | NC_000913 | 2729972 = | NA (NA) | noncoding (1186/1542 nt) | rrsG | 16S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | = 224973 | 15 (0.120) | 58 (0.500) | 22/186 | 8.7 | 80.5% | noncoding (1203/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 2729972 = | NA (NA) | noncoding (1186/1542 nt) | rrsG | 16S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | = 225281 | NA (NA) | 68 (0.580) | 22/188 | 8.8 | 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 | = 4168341 | 19 (0.150) | 33 (0.300) | 20/178 | 8.9 | 65.9% | intergenic (+141/‑31) | rrsB/gltT | 16S ribosomal RNA of rrnB operon/tRNA‑Glu |
| ? | NC_000913 | = 4168363 | NA (NA) | intergenic (+163/‑9) | rrsB/gltT | 16S ribosomal RNA of rrnB operon/tRNA‑Glu | |||||
| * | ? | NC_000913 | 225889 = | NA (NA) | 40 (0.350) | 20/184 | 9.3 | 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 | = 3946688 | 122 (0.990) | 90 (0.780) | 19/186 | 9.8 | 44.0% | intergenic (+81/‑12) | rrlC/rrfC | 23S ribosomal RNA of rrnC operon/5S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 4171601 | NA (NA) | intergenic (+57/‑36) | rrlB/rrfB | 23S ribosomal RNA of rrnB operon/5S ribosomal RNA of rrnB operon | |||||
| * | ? | NC_000913 | 2726200 = | NA (NA) | 89 (0.770) | 19/186 | 9.8 | 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 | 2700550 = | 154 (1.250) | 16 (0.160) | 15/160 | 9.8 | 12.1% | intergenic (‑353/+68) | shoB/acpS | toxic membrane protein/holo‑[acyl‑carrier‑protein] synthase 1 |
| ? | NC_000913 | 2700601 = | 109 (1.100) | intergenic (‑404/+17) | shoB/acpS | toxic membrane protein/holo‑[acyl‑carrier‑protein] synthase 1 | |||||