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 |
| Marginal read alignment evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 289,257 | 0 | T | A | 34.5% | 23.7 / 22.8 | 30 | intergenic (‑95/+44) | yagI/argF | CP4‑6 prophage; putative DNA‑binding transcriptional regulator/ornithine carbamoyltransferase 2, chain F; CP4‑6 prophage |
| * | NC_000913 | 289,256 | 0 | G | C | 33.3% | 36.1 / 28.3 | 30 | intergenic (‑94/+45) | yagI/argF | CP4‑6 prophage; putative DNA‑binding transcriptional regulator/ornithine carbamoyltransferase 2, chain F; CP4‑6 prophage |
| * | NC_000913 | 4,296,060 | 0 | C | T | 28.3% | 67.5 / 30.1 | 47 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 4,053,566 | 1 | . | A | 26.7% | 28.9 / 14.9 | 15 | intergenic (+148/+81) | hemN/yshB | coproporphyrinogen III oxidase, SAM and NAD(P)H dependent, oxygen‑independent/uncharacterized protein |
| * | NC_000913 | 2,462,678 | 0 | T | A | 21.2% | 66.4 / 14.7 | 33 | intergenic (+32/‑334) | fadL/yfdF | long‑chain fatty acid outer membrane transporter/uncharacterized protein |
| * | NC_000913 | 2,462,679 | 0 | A | T | 21.2% | 63.9 / 14.7 | 33 | intergenic (+33/‑333) | fadL/yfdF | long‑chain fatty acid outer membrane transporter/uncharacterized protein |
| * | NC_000913 | 53,376 | 0 | G | A | 20.6% | 68.6 / 10.8 | 34 | P14L (CCC→CTC) | pdxA | 4‑hydroxy‑L‑threonine phosphate dehydrogenase, NAD‑dependent |
| * | NC_000913 | 53,379 | 0 | T | C | 20.6% | 63.7 / 13.6 | 34 | E13G (GAG→GGG) | pdxA | 4‑hydroxy‑L‑threonine phosphate dehydrogenase, NAD‑dependent |
| * | NC_000913 | 2,462,677 | 0 | A | T | 20.6% | 69.6 / 13.3 | 34 | intergenic (+31/‑335) | fadL/yfdF | long‑chain fatty acid outer membrane transporter/uncharacterized protein |
| * | NC_000913 | 2,653,372 | 0 | T | C | 20.0% | 69.3 / 12.1 | 35 | intergenic (+33/‑483) | sseA/ryfA | 3‑mercaptopyruvate sulfurtransferase/novel sRNA, function unknown |
| * | NC_000913 | 3,282,927 | 0 | A | G | 20.0% | 58.6 / 10.3 | 30 | I318V (ATC→GTC) | agaS | tagatose‑6‑phosphate ketose/aldose isomerase |
| * | NC_000913 | 3,309,009 | 0 | C | T | 20.0% | 82.3 / 15.2 | 40 | intergenic (‑85/+24) | nlpI/pnp | lipoprotein involved in osmotic sensitivity and filamentation/polynucleotide phosphorylase/polyadenylase |
| * | NC_000913 | 3,309,012 | 0 | A | G | 20.0% | 81.3 / 15.4 | 40 | intergenic (‑88/+21) | nlpI/pnp | lipoprotein involved in osmotic sensitivity and filamentation/polynucleotide phosphorylase/polyadenylase |
| * | NC_000913 | 4,519,313 | 0 | C | A | 20.0% | 70.8 / 11.9 | 30 | intergenic (+89/+25) | insB1/yjhU | IS1 transposase B;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related/putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element |
| Marginal new junction evidence (lowest skew 10 of 75 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 303629 | 55 (1.470) | 7 (0.210) | 7/214 | 2.9 | 11.6% | intergenic (+24/+224) | yagU/ykgJ | DUF1440 family inner membrane acid resistance protein/UPF0153 cysteine cluster protein |
| ? | NC_000913 | = 303636 | 58 (1.730) | intergenic (+31/+217) | yagU/ykgJ | DUF1440 family inner membrane acid resistance protein/UPF0153 cysteine cluster protein | |||||
| * | ? | NC_000913 | 3968663 = | 36 (0.960) | 6 (0.170) | 6/220 | 3.3 | 16.0% | coding (748/1104 nt) | wecA | UDP‑GlcNAc:undecaprenylphosphate GlcNAc‑1‑phosphate transferase |
| ? | NC_000913 | 3968701 = | 30 (0.870) | coding (786/1104 nt) | wecA | UDP‑GlcNAc:undecaprenylphosphate GlcNAc‑1‑phosphate transferase | |||||
| * | ? | NC_000913 | = 1240065 | 24 (0.640) | 6 (0.180) | 6/218 | 3.3 | 20.8% | intergenic (+116/+270) | dadX/cvrA | alanine racemase, catabolic, PLP‑binding/putative cation/proton antiporter |
| ? | NC_000913 | = 1240072 | 24 (0.700) | intergenic (+123/+263) | dadX/cvrA | alanine racemase, catabolic, PLP‑binding/putative cation/proton antiporter | |||||
| * | ? | NC_000913 | 3774340 = | 68 (1.810) | 6 (0.170) | 6/224 | 3.4 | 8.3% | intergenic (+146/‑84) | mtlA/mtlD | mannitol‑specific PTS enzyme: IIA, IIB and IIC components/mannitol‑1‑phosphate dehydrogenase, NAD‑dependent |
| ? | NC_000913 | 3774360 = | 69 (1.970) | intergenic (+166/‑64) | mtlA/mtlD | mannitol‑specific PTS enzyme: IIA, IIB and IIC components/mannitol‑1‑phosphate dehydrogenase, NAD‑dependent | |||||
| * | ? | NC_000913 | 3681333 = | 65 (1.730) | 7 (0.200) | 6/228 | 3.4 | 9.5% | coding (608/1497 nt) | yhjJ | putative periplasmic M16 family chaperone |
| ? | NC_000913 | 3681360 = | 71 (1.990) | coding (581/1497 nt) | yhjJ | putative periplasmic M16 family chaperone | |||||
| * | ? | NC_000913 | 847204 = | 30 (0.800) | 6 (0.170) | 6/222 | 3.4 | 19.8% | intergenic (‑85/+54) | glnP/glnH | glutamine transporter subunit/glutamine transporter subunit |
| ? | NC_000913 | 847225 = | 21 (0.610) | intergenic (‑106/+33) | glnP/glnH | glutamine transporter subunit/glutamine transporter subunit | |||||
| * | ? | NC_000913 | 3928157 = | 49 (1.310) | 5 (0.140) | 5/228 | 3.8 | 9.9% | coding (1447/1452 nt) | viaA | stimulator of RavA ATPase activity; von Willebrand factor domain protein |
| ? | NC_000913 | 3928181 = | 44 (1.230) | coding (1423/1452 nt) | viaA | stimulator of RavA ATPase activity; von Willebrand factor domain protein | |||||
| * | ? | NC_000913 | 3828038 = | 83 (2.210) | 5 (0.140) | 5/230 | 3.8 | 6.3% | coding (628/1206 nt) | gltS | glutamate transporter |
| ? | NC_000913 | 3828072 = | 70 (1.950) | coding (594/1206 nt) | gltS | glutamate transporter | |||||
| * | ? | NC_000913 | 3700736 = | 60 (1.600) | 5 (0.140) | 5/228 | 3.8 | 7.0% | coding (174/1272 nt) | yhjV | putative transporter |
| ? | NC_000913 | 3700760 = | 76 (2.130) | coding (198/1272 nt) | yhjV | putative transporter | |||||
| * | ? | NC_000913 | 3389906 = | 38 (1.010) | 6 (0.170) | 5/230 | 3.8 | 14.7% | coding (387/930 nt) | aaeR | transcriptional regulator for aaeXAB operon |
| ? | NC_000913 | 3389939 = | 33 (0.920) | coding (420/930 nt) | aaeR | transcriptional regulator for aaeXAB operon | |||||