mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.27.1 revision 87c22d663cc3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 43 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 1,708,901 | 0 | A | C | 37.2% | 211.0 / 85.9 | 248 | R661R (CGA→CGC) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 3,269,994 | 0 | G | T | 35.0% | 204.6 / 36.4 | 191 | intergenic (+392/+631) | yhaC/garK | pentapetide repeats‑related protein/glycerate kinase I |
| * | NC_000913 | 2,947,467 | 0 | A | C | 34.0% | 150.7 / 137.2 | 108 | intergenic (+4/‑30) | metZ/metW | tRNA‑Met/tRNA‑Met |
| * | NC_000913 | 2,947,591 | 0 | A | . | 31.5% | 214.0 / 108.7 | 92 | intergenic (+18/‑16) | metW/metV | tRNA‑Met/tRNA‑Met |
| * | NC_000913 | 422,429 | 0 | T | G | 31.1% | 589.6 / 116.3 | 386 | intergenic (+70/‑89) | proY/malZ | proline‑specific permease/maltodextrin glucosidase |
| * | NC_000913 | 2,947,481 | 1 | . | A | 29.7% | 125.2 / 99.0 | 64 | intergenic (+18/‑16) | metZ/metW | tRNA‑Met/tRNA‑Met |
| * | NC_000913 | 1,708,930 | 0 | C | A | 29.4% | 417.5 / 78.1 | 252 | P671Q (CCG→CAG) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 1,552,191 | 0 | C | A | 28.7% | 873.1 / 131.9 | 470 | intergenic (+200/+207) | fdnI/yddM | formate dehydrogenase‑N, cytochrome B556 (gamma) subunit, nitrate‑inducible/putative DNA‑binding transcriptional regulator |
| * | NC_000913 | 4,296,060 | 0 | C | T | 28.2% | 590.2 / inf | 535 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 1,708,883 | 0 | C | A | 27.2% | 319.1 / 33.4 | 234 | V655V (GTC→GTA) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 1,708,805 | 0 | T | A | 27.1% | 112.4 / 38.3 | 155 | R629R (CGT→CGA) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 422,435 | 0 | T | G | 25.3% | 814.3 / 67.9 | 385 | intergenic (+76/‑83) | proY/malZ | proline‑specific permease/maltodextrin glucosidase |
| * | NC_000913 | 3,270,167 | 0 | C | G | 25.1% | 296.2 / 36.6 | 227 | intergenic (+565/+458) | yhaC/garK | pentapetide repeats‑related protein/glycerate kinase I |
| * | NC_000913 | 1,708,758 | 0 | G | C | 24.8% | 199.3 / 44.0 | 159 | E614Q (GAA→CAA) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 1,708,910 | 0 | G | C | 24.8% | 412.5 / 28.0 | 240 | A664A (GCG→GCC) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 2,818,145 | 0 | T | C | 24.6% | 317.9 / 116.4 | 203 | intergenic (‑10/+53) | argZ/argY | tRNA‑Arg/tRNA‑Arg |
| * | NC_000913 | 696,534 | 0 | G | T | 23.7% | 283.9 / 38.8 | 140 | intergenic (‑30/+8) | glnX/glnV | tRNA‑Gln/tRNA‑Gln |
| * | NC_000913 | 4,392,457 | 0 | G | T | 23.4% | 355.0 / 15.5 | 226 | intergenic (+22/‑15) | glyV/glyX | tRNA‑Gly/tRNA‑Gly |
| * | NC_000913 | 2,304,842 | 0 | C | A | 23.3% | 254.4 / 18.7 | 223 | intergenic (+449/+266) | eco/mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| * | NC_000913 | 3,270,151 | 0 | A | C | 23.2% | 209.7 / 23.0 | 192 | intergenic (+549/+474) | yhaC/garK | pentapetide repeats‑related protein/glycerate kinase I |
| Marginal new junction evidence (lowest skew 10 of 43 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1207805 | 182 (0.430) | 215 (0.570) | 137/268 | 3.3 | 56.5% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 169 (0.450) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1287084 | 206 (0.480) | 99 (0.270) | 56/260 | 21.9 | 29.8% | intergenic (+558/+3) | narI/tpr | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/protamine‑like protein |
| ? | NC_000913 | 1287557 = | 287 (0.780) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | 781369 = | 246 (0.580) | 145 (0.350) +GAAG |
52/292 | 27.2 | 41.7% | noncoding (1/76 nt) | lysZ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 171 (0.400) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | 781577 = | 315 (0.740) | 193 (0.470) +GAAG |
51/292 | 27.6 | 44.9% | noncoding (1/76 nt) | lysQ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 171 (0.400) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | 780554 = | 479 (1.130) | 110 (0.270) +GAAG |
51/292 | 27.6 | 25.8% | noncoding (1/76 nt) | lysT | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 171 (0.400) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | 696863 = | 140 (0.330) | 79 (0.200) +GAAGAAACAATC |
37/276 | 32.3 | 23.0% | intergenic (‑33/+2) | glnW/glnU | tRNA‑Gln/tRNA‑Gln |
| ? | NC_000913 | = 697134 | 434 (1.020) | intergenic (‑1/+379) | metT/asnB | tRNA‑Met/asparagine synthetase B | |||||
| * | ? | NC_000913 | = 781446 | 264 (0.620) | 54 (0.150) | 33/260 | 32.6 | 15.8% | intergenic (+2/‑131) | lysZ/lysQ | tRNA‑Lys/tRNA‑Lys |
| ? | NC_000913 | 2521487 = | 349 (0.950) | intergenic (+159/+106) | lysV/xapR | tRNA‑Lys/transcriptional activator of xapAB | |||||
| * | ? | NC_000913 | = 2357690 | 288 (0.680) | 63 (0.160) +AATTAGAAGGTT |
36/276 | 32.9 | 19.2% | coding (787/900 nt) | yfaD | transposase_31 family protein |
| ? | NC_000913 | 2357691 = | 288 (0.680) | coding (788/900 nt) | yfaD | transposase_31 family protein | |||||
| * | ? | NC_000913 | = 2817942 | 283 (0.670) | 49 (0.130) | 32/260 | 33.1 | 14.2% | intergenic (‑82/+117) | argQ/argZ | tRNA‑Arg/tRNA‑Arg |
| ? | NC_000913 | 2818492 = | 348 (0.940) | noncoding (58/77 nt) | argV | tRNA‑Arg | |||||
| * | ? | NC_000913 | 781369 = | 246 (0.580) | 96 (0.230) +G |
40/298 | 33.3 | 35.4% | noncoding (1/76 nt) | lysZ | tRNA‑Lys |
| ? | NC_000913 | = 2521128 | 106 (0.250) | intergenic (+2/‑45) | valX/valY | tRNA‑Val/tRNA‑Val | |||||