mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4 revision f352f80f4bc9
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_3_bme_pgi | 2,432,985 | 0 | A | G | 27.9% | 92.0 / 41.3 | 62 | intergenic (‑43/+27) | folC/accD | bifunctional folylpolyglutamate synthase/ dihydrofolate synthase/acetyl‑CoA carboxylase, beta (carboxyltransferase) subunit |
| * | NC_000913_3_bme_pgi | 2,432,990 | 0 | G | C | 25.8% | 126.4 / 49.5 | 62 | intergenic (‑48/+22) | folC/accD | bifunctional folylpolyglutamate synthase/ dihydrofolate synthase/acetyl‑CoA carboxylase, beta (carboxyltransferase) subunit |
| * | NC_000913_3_bme_pgi | 2,432,995 | 0 | C | T | 25.0% | 100.2 / 35.9 | 60 | intergenic (‑53/+17) | folC/accD | bifunctional folylpolyglutamate synthase/ dihydrofolate synthase/acetyl‑CoA carboxylase, beta (carboxyltransferase) subunit |
| * | NC_000913_3_bme_pgi | 4,296,061 | 0 | C | T | 24.3% | 122.3 / 38.2 | 70 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913_3_bme_pgi | 4,520,505 | 1 | . | T | 23.2% | 169.5 / 74.4 | 69 | intergenic (‑180/+167) | yjhU/yjhF | putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter |
| * | NC_000913_3_bme_pgi | 526,796 | 0 | C | G | 23.2% | 183.8 / 53.1 | 82 | A1179G (GCG→GGG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_bme_pgi | 4,520,501 | 0 | A | . | 22.9% | 195.6 / 58.9 | 70 | intergenic (‑176/+171) | yjhU/yjhF | putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter |
| * | NC_000913_3_bme_pgi | 526,792 | 0 | A | C | 21.6% | 160.7 / 54.1 | 88 | S1178R (AGC→CGC) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_bme_pgi | 3,781,051 | 0 | C | G | 21.5% | 152.4 / 42.3 | 65 | intergenic (+34/‑164) | lldD/trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| * | NC_000913_3_bme_pgi | 3,208,210 | 0 | T | C | 20.4% | 113.1 / 20.7 | 49 | S63P (TCC→CCC) | ttdT | L‑tartrate/succinate antiporte |
| * | NC_000913_3_bme_pgi | 3,981,102 | 0 | T | A | 20.0% | 116.7 / 27.3 | 50 | V72V (GTT→GTA) | yifK | putative APC family amino acid transporter |
| * | NC_000913_3_bme_pgi | 4,314,234 | 0 | A | T | 20.0% | 177.1 / 37.7 | 75 | intergenic (+36/+111) | yjdP/phnP | putative periplasmic protein/5‑phospho‑alpha‑D‑ribosyl 1,2‑cyclic phosphate phosphodiesterase |
| Marginal new junction evidence (lowest skew 10 of 534 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_bme_pgi | 3423376 = | 71 (1.140) | 20 (0.330) | 14/262 | 5.0 | 23.0% | intergenic (+182/+47) | yhdZ/rrfF | putative amino acid ABC transporter ATPase/5S ribosomal RNA of rrnD operon |
| ? | NC_000913_3_bme_pgi | = 4213162 | 64 (1.040) | intergenic (+3/‑72) | rrfE/yjaA | 5S ribosomal RNA of rrnE operon/stress‑induced protein | |||||
| * | ? | NC_000913_3_bme_pgi | = 16507 | NA (NA) | 15 (0.260) | 13/250 | 5.0 | NA | coding (1063/1113 nt) | insL1 | IS186 transposase |
| ? | NC_000913_3_bme_pgi | = 16511 | NA (NA) | coding (1067/1113 nt) | insL1 | IS186 transposase | |||||
| * | ? | NC_000913_3_bme_pgi | 4426580 = | 74 (1.190) | 13 (0.230) | 12/240 | 5.1 | 17.0% | intergenic (+22/+49) | rplI/yjfZ | 50S ribosomal subunit protein L9/uncharacterized protein |
| ? | NC_000913_3_bme_pgi | 4426607 = | 60 (1.070) | intergenic (+49/+22) | rplI/yjfZ | 50S ribosomal subunit protein L9/uncharacterized protein | |||||
| * | ? | NC_000913_3_bme_pgi | 1437201 = | 43 (0.690) | 14 (0.240) | 13/252 | 5.1 | 27.3% | noncoding (81/109 nt) | micC | sRNA antisense regulator of OmpC translation, Hfq‑dependent |
| ? | NC_000913_3_bme_pgi | 1437225 = | 34 (0.580) | noncoding (105/109 nt) | micC | sRNA antisense regulator of OmpC translation, Hfq‑dependent | |||||
| * | ? | NC_000913_3_bme_pgi | = 1463456 | 61 (0.980) | 12 (0.210) | 12/244 | 5.2 | 17.4% | intergenic (+18/‑83) | paaK/paaX | phenylacetyl‑CoA ligase/transcriptional repressor of phenylacetic acid degradation paa operon, phenylacetyl‑CoA inducer |
| ? | NC_000913_3_bme_pgi | = 1463468 | 58 (1.020) | intergenic (+30/‑71) | paaK/paaX | phenylacetyl‑CoA ligase/transcriptional repressor of phenylacetic acid degradation paa operon, phenylacetyl‑CoA inducer | |||||
| * | ? | NC_000913_3_bme_pgi | 3423376 = | 71 (1.140) | 16 (0.260) | 13/262 | 5.3 | 27.1% | intergenic (+182/+47) | yhdZ/rrfF | putative amino acid ABC transporter ATPase/5S ribosomal RNA of rrnD operon |
| ? | NC_000913_3_bme_pgi | = 3946822 | 16 (0.260) | intergenic (+3/‑50) | rrfC/aspT | 5S ribosomal RNA of rrnC operon/tRNA‑Asp | |||||
| * | ? | NC_000913_3_bme_pgi | 3423376 = | 71 (1.140) | 16 (0.260) | 13/262 | 5.3 | 18.6% | intergenic (+182/+47) | yhdZ/rrfF | putative amino acid ABC transporter ATPase/5S ribosomal RNA of rrnD operon |
| ? | NC_000913_3_bme_pgi | 3423665 = | NA (NA) | intergenic (‑10/+3) | thrV/rrfD | tRNA‑Thr/5S ribosomal RNA of rrnD operon | |||||
| * | ? | NC_000913_3_bme_pgi | 847204 = | 59 (0.950) | 14 (0.240) | 12/248 | 5.3 | 20.3% | intergenic (‑85/+54) | glnP/glnH | glutamine transporter subunit/glutamine transporter subunit |
| ? | NC_000913_3_bme_pgi | 847225 = | 55 (0.950) | intergenic (‑106/+33) | glnP/glnH | glutamine transporter subunit/glutamine transporter subunit | |||||
| * | ? | NC_000913_3_bme_pgi | = 3423619 | 64 (1.030) | 12 (0.200) | 12/252 | 5.4 | 16.8% | noncoding (37/76 nt) | thrV | tRNA‑Thr |
| ? | NC_000913_3_bme_pgi | = 3423622 | 58 (0.980) | noncoding (34/76 nt) | thrV | tRNA‑Thr | |||||
| * | ? | NC_000913_3_bme_pgi | 659191 = | 53 (0.850) | 11 (0.200) | 11/240 | 5.4 | 18.2% | intergenic (+41/+60) | tatE/lipA | TatABCE protein translocation system subunit/lipoate synthase |
| ? | NC_000913_3_bme_pgi | 659221 = | 51 (0.910) | intergenic (+71/+30) | tatE/lipA | TatABCE protein translocation system subunit/lipoate synthase | |||||