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 | 1,629,435 | 0 | G | A | 25.0% | 62.6 / 18.0 | 36 | intergenic (+17/+18) | ydfZ/ydfI | selenoprotein, function unknown/putative NAD‑dependent D‑mannonate oxidoreductase |
| * | NC_000913 | 2,028,158 | 0 | G | C | 24.1% | 54.2 / 17.5 | 29 | intergenic (‑141/+30) | yedQ/yodC | putative membrane‑anchored diguanylate cyclase/uncharacterized protein |
| * | NC_000913 | 2,028,159 | 0 | T | A | 24.1% | 43.2 / 15.0 | 29 | intergenic (‑142/+29) | yedQ/yodC | putative membrane‑anchored diguanylate cyclase/uncharacterized protein |
| * | NC_000913 | 2,028,160 | 0 | G | C | 24.1% | 53.6 / 16.5 | 29 | intergenic (‑143/+28) | yedQ/yodC | putative membrane‑anchored diguanylate cyclase/uncharacterized protein |
| * | NC_000913 | 3,059,703 | 0 | A | T | 23.8% | 79.2 / 23.6 | 42 | intergenic (‑2/‑50) | yqfE/argP | pseudogene, LysR family/transcriptional regulator for arginine transport and DNA replication genes; replication initiation inhibitor |
| * | NC_000913 | 3,059,704 | 0 | A | T | 23.8% | 80.7 / 23.4 | 42 | intergenic (‑3/‑49) | yqfE/argP | pseudogene, LysR family/transcriptional regulator for arginine transport and DNA replication genes; replication initiation inhibitor |
| * | NC_000913 | 1,629,437 | 0 | T | C | 23.7% | 68.6 / 19.2 | 38 | intergenic (+19/+16) | ydfZ/ydfI | selenoprotein, function unknown/putative NAD‑dependent D‑mannonate oxidoreductase |
| * | NC_000913 | 1,629,436 | 0 | A | T | 23.1% | 80.0 / 19.6 | 39 | intergenic (+18/+17) | ydfZ/ydfI | selenoprotein, function unknown/putative NAD‑dependent D‑mannonate oxidoreductase |
| * | NC_000913 | 3,423,390 | 0 | C | T | 23.1% | 85.3 / 19.1 | 39 | intergenic (+196/+33) | yhdZ/rrfF | putative amino acid ABC transporter ATPase/5S ribosomal RNA of rrnD operon |
| * | NC_000913 | 2,604,980 | 0 | T | C | 22.2% | 66.9 / 16.0 | 37 | V57A (GTC→GCC) | hyfD | hydrogenase 4, membrane subunit |
| * | NC_000913 | 4,296,060 | 0 | C | T | 22.2% | 82.2 / 21.6 | 46 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 2,866,487 | 0 | G | C | 20.6% | 86.2 / 15.1 | 34 | intergenic (+22/+72) | ygbN/rpoS | putative transporter/RNA polymerase, sigma S (sigma 38) factor |
| * | NC_000913 | 2,866,488 | 0 | G | C | 20.6% | 84.7 / 16.2 | 34 | intergenic (+23/+71) | ygbN/rpoS | putative transporter/RNA polymerase, sigma S (sigma 38) factor |
| * | NC_000913 | 3,423,405 | 0 | A | G | 20.0% | 89.7 / 15.8 | 40 | intergenic (+211/+18) | yhdZ/rrfF | putative amino acid ABC transporter ATPase/5S ribosomal RNA of rrnD operon |
| Marginal new junction evidence (lowest skew 10 of 76 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1411899 = | 61 (1.680) | 9 (0.310) | 9/198 | 2.0 | 19.1% | coding (50/936 nt) | ttcA | tRNA s(2)C32 thioltransferase, iron sulfur cluster protein |
| ? | NC_000913 | = 1434958 | 28 (0.970) | pseudogene (51/51 nt) | ttcC | pseudogene, prophage Rac integration site ttcA duplication;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 178919 = | 42 (1.150) | 8 (0.230) | 7/238 | 3.1 | 17.0% | coding (235/699 nt) | mtn | 5'‑methylthioadenosine/S‑adenosylhomocysteine nucleosidase |
| ? | NC_000913 | 178936 = | 38 (1.100) | coding (218/699 nt) | mtn | 5'‑methylthioadenosine/S‑adenosylhomocysteine nucleosidase | |||||
| * | ? | NC_000913 | 2521262 = | 35 (0.960) | 4 (0.150) +33 bp |
4/184 | 3.3 | 12.5% | noncoding (10/76 nt) | lysV | tRNA‑Lys |
| ? | NC_000913 | 2521467 = | 41 (1.130) | intergenic (+139/+126) | lysV/xapR | tRNA‑Lys/transcriptional activator of xapAB | |||||
| * | ? | NC_000913 | 1784702 = | 43 (1.180) | 6 (0.180) | 6/234 | 3.3 | 12.2% | intergenic (+25/+32) | fadK/ppsA | short chain acyl‑CoA synthetase, anaerobic/phosphoenolpyruvate synthase |
| ? | NC_000913 | 1784727 = | 46 (1.350) | intergenic (+50/+7) | fadK/ppsA | short chain acyl‑CoA synthetase, anaerobic/phosphoenolpyruvate synthase | |||||
| * | ? | NC_000913 | 781791 = | 32 (0.880) | 4 (0.150) +33 bp |
4/184 | 3.3 | 14.0% | intergenic (+139/‑294) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A |
| ? | NC_000913 | 2521262 = | 35 (0.960) | noncoding (10/76 nt) | lysV | tRNA‑Lys | |||||
| * | ? | NC_000913 | 781586 = | 44 (1.210) | 4 (0.150) +33 bp |
4/184 | 3.3 | 11.3% | noncoding (10/76 nt) | lysQ | tRNA‑Lys |
| ? | NC_000913 | 2521467 = | 41 (1.130) | intergenic (+139/+126) | lysV/xapR | tRNA‑Lys/transcriptional activator of xapAB | |||||
| * | ? | NC_000913 | 781586 = | 44 (1.210) | 4 (0.150) +33 bp |
4/184 | 3.3 | 12.5% | noncoding (10/76 nt) | lysQ | tRNA‑Lys |
| ? | NC_000913 | 781791 = | 32 (0.880) | intergenic (+139/‑294) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A | |||||
| * | ? | NC_000913 | 781378 = | 40 (1.100) | 4 (0.150) +33 bp |
4/184 | 3.3 | 11.8% | noncoding (10/76 nt) | lysZ | tRNA‑Lys |
| ? | NC_000913 | 2521467 = | 41 (1.130) | intergenic (+139/+126) | lysV/xapR | tRNA‑Lys/transcriptional activator of xapAB | |||||
| * | ? | NC_000913 | 781378 = | 40 (1.100) | 4 (0.150) +33 bp |
4/184 | 3.3 | 13.1% | noncoding (10/76 nt) | lysZ | tRNA‑Lys |
| ? | NC_000913 | 781791 = | 32 (0.880) | intergenic (+139/‑294) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A | |||||
| * | ? | NC_000913 | 781156 = | 19 (0.520) | 4 (0.150) +33 bp |
4/184 | 3.3 | 15.3% | noncoding (10/76 nt) | lysY | tRNA‑Lys |
| ? | NC_000913 | 2521467 = | 41 (1.130) | intergenic (+139/+126) | lysV/xapR | tRNA‑Lys/transcriptional activator of xapAB | |||||