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 29 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 1,634,946 | 0 | G | T | 42.1% | 29.4 / 22.5 | 19 | A301D (GCT→GAT) | stfQ | Qin prophage; putative side tail fibre assembly protein |
| * | NC_000913 | 1,634,949 | 0 | G | C | 42.1% | 30.3 / 23.5 | 19 | A300G (GCT→GGT) | stfQ | Qin prophage; putative side tail fibre assembly protein |
| * | NC_000913 | 3,705,984 | 0 | T | G | 41.6% | 342.5 / inf | 281 | 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 | 41.6% | 273.5 / inf | 281 | 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 | 38.4% | 428.4 / inf | 276 | intergenic (‑258/+50) | 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 | 33.6% | 432.1 / 249.0 | 230 | intergenic (‑181/+127) | 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 | 33.5% | 361.6 / 211.0 | 230 | intergenic (‑180/+128) | 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 | 33.0% | 225.8 / 186.0 | 180 | 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 | 3,706,017 | 0 | C | T | 30.2% | 441.1 / 199.2 | 276 | 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 | 30.1% | 478.6 / 260.7 | 281 | intergenic (‑188/+120) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 4,520,500 | 0 | A | . | 27.1% | 421.0 / 160.8 | 166 | intergenic (‑176/+171) | yjhU/yjhF | putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter |
| * | NC_000913 | 4,520,504 | 1 | . | T | 26.8% | 365.4 / 203.6 | 168 | intergenic (‑180/+167) | yjhU/yjhF | putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter |
| * | NC_000913 | 3,706,028 | 0 | T | C | 23.7% | 512.0 / 167.5 | 280 | intergenic (‑238/+70) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 1,634,958 | 0 | G | C | 23.5% | 85.9 / 21.0 | 34 | T297S (ACC→AGC) | stfQ | Qin prophage; putative side tail fibre assembly protein |
| * | NC_000913 | 1,634,961 | 0 | A | C | 22.9% | 85.5 / 21.4 | 35 | I296S (ATC→AGC) | stfQ | Qin prophage; putative side tail fibre assembly protein |
| * | NC_000913 | 151,522 | 0 | G | T | 22.6% | 349.4 / 104.4 | 156 | A26A (GCC→GCA) | yadK | putative fimbrial‑like adhesin protein |
| * | NC_000913 | 151,519 | 0 | A | C | 22.3% | 332.6 / 108.2 | 157 | I27M (ATT→ATG) | yadK | putative fimbrial‑like adhesin protein |
| * | NC_000913 | 2,090,126 | 0 | C | T | 22.1% | 283.3 / 72.6 | 141 | intergenic (+80/‑66) | hisL/hisG | his operon leader peptide/ATP phosphoribosyltransferase |
| * | NC_000913 | 2,090,122 | 0 | A | G | 21.4% | 272.1 / 72.6 | 140 | intergenic (+76/‑70) | hisL/hisG | his operon leader peptide/ATP phosphoribosyltransferase |
| * | NC_000913 | 2,364,995 | 0 | T | G | 21.2% | 401.2 / 121.4 | 185 | intergenic (+16/+23) | nudI/ais | nucleoside triphosphatase/putative LPS core heptose(II)‑phosphate phosphatase |
| Marginal new junction evidence (lowest skew 10 of 1048 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 274419 | NA (NA) | 95 (0.760) | 25/188 | 7.7 | NA | noncoding (731/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 274423 | NA (NA) | noncoding (727/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 382205 | NA (NA) | 65 (0.500) | 26/196 | 7.9 | NA | noncoding (946/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 382224 | NA (NA) | noncoding (965/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 228108 | NA (NA) | 44 (0.350) | 25/190 | 7.9 | 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 | 2727891 = | NA (NA) | 71 (0.580) | 23/186 | 8.3 | 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 | = 225281 | NA (NA) | 74 (0.600) | 23/188 | 8.4 | 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 | = 3943635 | NA (NA) | 55 (0.450) | 22/184 | 8.5 | 67.1% | intergenic (+125/‑69) | gltU/rrlC | tRNA‑Glu/23S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 4037446 | 29 (0.220) | intergenic (+111/‑73) | alaT/rrlA | tRNA‑Ala/23S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | 228016 = | NA (NA) | 39 (0.320) | 22/184 | 8.5 | 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 | = 3944978 | NA (NA) | 71 (0.580) | 22/186 | 8.6 | 69.0% | noncoding (1275/2904 nt) | rrlC | 23S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 4038811 | 34 (0.260) | noncoding (1293/2905 nt) | rrlA | 23S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | = 227052 | 1 (0.010) | 70 (0.570) | 22/186 | 8.6 | 98.7% | noncoding (1294/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 2727910 = | NA (NA) | noncoding (1275/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | = 225685 | 187 (1.430) | 53 (0.430) | 22/186 | 8.6 | 23.2% | intergenic (+110/‑74) | alaV/rrlH | tRNA‑Ala/23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 3943636 | NA (NA) | intergenic (+126/‑68) | gltU/rrlC | tRNA‑Glu/23S ribosomal RNA of rrnC operon | |||||