mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | position | mutation | freq | annotation | gene | description |
| RA | 202,885 | C→T | 5.3% | T109M (ACG→ATG) | lpxA → | UDP‑N‑acetylglucosamine acetyltransferase |
| MC JC | 257,908 | Δ776 bp | 100% | [crl] | [crl] | |
| RA | 498,221 | T→A | 6.8% | L56Q (CTG→CAG) | hemH → | ferrochelatase |
| RA | 581,394 | T→C | 6.6% | pseudogene (41/309 nt) | aaaD → | pseudogene; DLP12 prophage; tail fiber assembly protein family;Phage or Prophage Related |
| RA | 839,746 | C→T | 9.8% | E596K (GAA→AAA) | fiu ← | catecholate siderophore receptor |
| RA | 987,197 | A→T | 8.7% | intergenic (‑215/+388) | ompF ← / ← asnS | outer membrane porin 1a (Ia;b;F)/asparaginyl tRNA synthetase |
| RA | 1,076,065 | C→T | 8.6% | A940T (GCA→ACA) | putA ← | fused DNA‑binding transcriptional regulator/proline dehydrogenase/pyrroline‑5‑carboxylate dehydrogenase |
| MC JC | 1,299,499 | Δ1,199 bp | 100% | intergenic (+254/‑485) | ychE → / → oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein |
| RA | 1,413,542 | A→T | 100% | Y67N (TAT→AAT) | ydaC ← | DUF1187 family protein, Rac prophage; putative double‑strand break reduction protein |
| RA | 1,793,897 | Δ1 bp | 100% | coding (213/552 nt) | btuE ← | glutathione peroxidase |
| MC JC | 1,978,503 | Δ776 bp | 100% | insB1–insA | insB1, insA | |
| RA | 2,093,040 | G→A | 100% | A215T (GCT→ACT) | hisC → | histidinol‑phosphate aminotransferase |
| RA | 2,280,025 | G→A | 8.4% | Q153* (CAG→TAG) | rsuA ← | 16S rRNA pseudouridine(516) synthase |
| RA | 2,447,744 | G→A | 8.9% | A232V (GCA→GTA) | prmB ← | N5‑glutamine methyltransferase |
| RA | 3,511,347 | A→G | 9.7% | V25A (GTC→GCC) | yhfY ← | PRD domain protein |
| RA | 4,117,004 | T→A | 100% | D73V (GAT→GTT) | glpK ← | glycerol kinase |
| MC JC | 4,188,484 | Δ27 bp | 100% | coding (3136‑3162/4224 nt) | rpoC → | RNA polymerase, beta prime subunit |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3423759–3424232 | 3424529–3424236 | 5–771 | 11 [10] | [10] 12 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 226299 | NA (NA) | 3 (0.060) | 3/272 | NT | NA | noncoding (541/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 2728632 = | NA (NA) | noncoding (551/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | 1207790 = | 16 (0.310) | 31 (0.680) | 29/244 | NT | 72.8% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 9 (0.200) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 15 (0.290) | 27 (0.600) | 22/244 | NT | 70.8% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 9 (0.200) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 3041842 | 52 (1.010) | 3 (0.060) | 3/256 | NT | 5.6% | coding (532/981 nt) | ygfZ | iron‑sulfur cluster repair protein, plumbagin resistance |
| ? | NC_000913 | = 3041930 | 52 (1.090) | coding (620/981 nt) | ygfZ | iron‑sulfur cluster repair protein, plumbagin resistance | |||||
| * | ? | NC_000913 | 3110532 = | 51 (0.990) | 3 (0.060) | 3/254 | NT | 6.6% | intergenic (+93/+56) | pheV/yghD | tRNA‑Phe/putative membrane‑anchored secretion pathway M‑type protein |
| ? | NC_000913 | 3110563 = | 38 (0.800) | intergenic (+124/+25) | pheV/yghD | tRNA‑Phe/putative membrane‑anchored secretion pathway M‑type protein | |||||
| * | ? | NC_000913 | = 4040682 | 69 (1.340) | 8 (0.160) | 3/272 | NT | 10.9% | intergenic (+47/+223) | rrfA/mobB | 5S ribosomal RNA of rrnA operon/molybdopterin‑guanine dinucleotide biosynthesis protein B |
| ? | NC_000913 | = 4213161 | 63 (1.250) | intergenic (+3/‑72) | rrfE/yjaA | 5S ribosomal RNA of rrnE operon/stress‑induced protein | |||||