mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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 25 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,705,984 | 0 | T | G | 39.2% | 316.5 / inf | 232 | 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 | 39.2% | 259.3 / 270.2 | 232 | 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 | 39.1% | 307.7 / 255.8 | 208 | intergenic (‑258/+50) | 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 | 31.3% | 329.1 / 163.8 | 213 | intergenic (‑227/+81) | 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 | 31.1% | 265.9 / 186.8 | 190 | 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 | 3,705,970 | 0 | G | A | 28.8% | 360.3 / 151.5 | 198 | 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 | 28.8% | 442.2 / 182.2 | 198 | intergenic (‑181/+127) | 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 | 28.2% | 439.6 / 205.2 | 235 | intergenic (‑188/+120) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 1,703,251 | 0 | A | T | 23.5% | 232.4 / 78.3 | 119 | intergenic (+17/+17) | add/ydgJ | adenosine deaminase/putative oxidoreductase |
| * | NC_000913 | 1,703,252 | 0 | A | T | 23.5% | 234.8 / 79.3 | 119 | intergenic (+18/+16) | add/ydgJ | adenosine deaminase/putative oxidoreductase |
| * | NC_000913 | 2,763,003 | 0 | G | A | 23.1% | 259.4 / 70.0 | 130 | H180Y (CAT→TAT) | yfjK | radiation resistance protein; DEAD/H helicase‑like protein; CP4‑57 putative defective prophage |
| * | NC_000913 | 2,763,002 | 0 | T | G | 22.9% | 268.5 / 92.3 | 131 | H180P (CAT→CCT) | yfjK | radiation resistance protein; DEAD/H helicase‑like protein; CP4‑57 putative defective prophage |
| * | NC_000913 | 3,706,028 | 0 | T | C | 22.6% | 396.2 / 115.1 | 213 | intergenic (‑238/+70) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 1,224,239 | 0 | A | T | 22.1% | 235.1 / 66.6 | 114 | intergenic (+332/+40) | ycgI/minE | pseudogene/cell division topological specificity factor |
| * | NC_000913 | 1,224,242 | 0 | A | T | 21.9% | 245.9 / 67.0 | 115 | intergenic (+335/+37) | ycgI/minE | pseudogene/cell division topological specificity factor |
| * | NC_000913 | 3,981,102 | 0 | T | A | 21.4% | 200.9 / 56.9 | 98 | V72V (GTT→GTA) | yifK | putative APC family amino acid transporter |
| * | NC_000913 | 603,395 | 0 | C | G | 21.2% | 330.6 / 86.8 | 138 | intergenic (+60/+21) | pheP/ybdG | phenylalanine transporter/mechanosensitive channel protein, miniconductance |
| * | NC_000913 | 3,706,029 | 0 | T | C | 21.1% | 404.0 / 98.2 | 213 | intergenic (‑239/+69) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,781,152 | 0 | A | G | 21.1% | 176.7 / 16.0 | 95 | intergenic (+135/‑63) | lldD/trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| * | NC_000913 | 603,391 | 0 | C | G | 20.7% | 335.2 / 86.0 | 140 | intergenic (+56/+25) | pheP/ybdG | phenylalanine transporter/mechanosensitive channel protein, miniconductance |
| Marginal new junction evidence (lowest skew 10 of 899 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 3943624 | NA (NA) | 51 (0.450) | 26/184 | 7.4 | 77.4% | intergenic (+114/‑80) | gltU/rrlC | tRNA‑Glu/23S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 4037457 | 16 (0.130) | intergenic (+122/‑62) | alaT/rrlA | tRNA‑Ala/23S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | = 4037450 | NA (NA) | 53 (0.470) | 24/184 | 8.0 | 26.5% | intergenic (+115/‑69) | alaT/rrlA | tRNA‑Ala/23S ribosomal RNA of rrnA operon |
| ? | NC_000913 | = 4168568 | 158 (1.310) | intergenic (+121/‑73) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA of rrnB operon | |||||
| * | ? | NC_000913 | = 274419 | NA (NA) | 115 (1.000) | 25/188 | 8.0 | NA | noncoding (731/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 274423 | NA (NA) | noncoding (727/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 1468681 | NA (NA) | 76 (1.140) +44 bp |
9/110 | 8.9 | NA | noncoding (560/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 1650843 = | NA (NA) | noncoding (1/706 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 225281 | NA (NA) | 67 (0.580) | 22/188 | 9.0 | 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 | = 3944978 | NA (NA) | 68 (0.600) | 21/186 | 9.2 | 84.8% | noncoding (1275/2904 nt) | rrlC | 23S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 4038811 | 13 (0.110) | noncoding (1293/2905 nt) | rrlA | 23S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | 2727891 = | NA (NA) | 68 (0.600) | 21/186 | 9.2 | 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 | = 227052 | 43 (0.360) | 68 (0.600) | 20/186 | 9.6 | 62.7% | 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 | = 3943624 | NA (NA) | 41 (0.370) | 19/184 | 9.9 | 100% | intergenic (+114/‑80) | gltU/rrlC | tRNA‑Glu/23S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 3943642 | 0 (0.000) | intergenic (+132/‑62) | gltU/rrlC | tRNA‑Glu/23S ribosomal RNA of rrnC operon | |||||
| * | ? | NC_000913 | 228016 = | NA (NA) | 36 (0.320) | 19/184 | 9.9 | 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 | |||||