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 (highest frequency 20 of 429 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 1,634,019 | 0 | T | C | 72.7% | 18.1 / 21.6 | 33 | I125V (ATT→GTT) | nohA | NohA |
| * | NC_000913 | 118,780 | 0 | A | G | 68.2% | 299.7 / 221.4 | 258 | S16S (TCA→TCG) | ampD | AmpD |
| * | NC_000913 | 4,606,898 | 0 | T | C | 68.2% | 507.2 / 259.7 | 220 | intergenic (+6/‑85) | yjjG/prfC | putative phosphatase/peptide chain release factor RF‑3 |
| * | NC_000913 | 878,050 | 0 | T | C | 67.9% | 285.7 / 230.1 | 253 | V29A (GTA→GCA) | yliI | putative dehydrogenase |
| * | NC_000913 | 1,938,723 | 0 | G | A | 67.5% | 386.7 / 218.2 | 265 | P292S (CCA→TCA) | yebA | hypothetical protein |
| * | NC_000913 | 1,774,687 | 0 | G | A | 66.9% | 365.3 / 225.5 | 260 | M359I (ATG→ATA) | ydiF | hypothetical protein |
| * | NC_000913 | 4,185,128 | 0 | C | T | 66.6% | 400.4 / 267.1 | 299 | A734V (GCG→GTG) | rpoC | RNA polymerase beta prime subunit |
| * | NC_000913 | 1,129,733 | 0 | T | C | 66.5% | 262.5 / 223.8 | 242 | K118K (AAA→AAG) | flgA | FlgA |
| * | NC_000913 | 2,533,081 | 0 | T | C | 66.2% | 332.9 / 290.9 | 317 | R332R (CGT→CGC) | ptsI | PEP‑protein phosphotransferase system enzyme I |
| * | NC_000913 | 2,845,320 | 0 | A | G | 66.0% | 239.9 / 228.3 | 241 | V39A (GTG→GCG) | hycD | membrane‑spanning protein of hydrogenase 3 |
| * | NC_000913 | 1,238,497 | 0 | C | T | 65.9% | 320.2 / 236.4 | 265 | G132G (GGC→GGT) | dadX | alanine racemase 2, catabolic |
| * | NC_000913 | 158,300 | 0 | A | G | 65.4% | 267.2 / 302.0 | 295 | F265S (TTC→TCC) | pcnB | poly(A) polymerase I |
| * | NC_000913 | 2,497,595 | 0 | T | C | 64.8% | 262.5 / 294.9 | 291 | V302A (GTG→GCG) | b2380 | putative sensor protein |
| * | NC_000913 | 4,136,522 | 0 | A | G | 64.8% | 247.8 / 311.8 | 290 | W32R (TGG→CGG) | b3945 | glycerol dehydrogenase (NAD) |
| * | NC_000913 | 3,236,562 | 0 | T | C | 64.6% | 314.1 / inf | 357 | V114A (GTG→GCG) | ygjT | putative transport protein |
| * | NC_000913 | 1,232,509 | 0 | C | T | 64.5% | 324.5 / 260.2 | 288 | A478T (GCC→ACC) | nhaB | Na+/H+ antiporter, pH independent |
| * | NC_000913 | 3,488,696 | 0 | A | G | 64.3% | 260.6 / inf | 326 | H135H (CAT→CAC) | fic | Fic |
| * | NC_000913 | 412,124 | 0 | A | G | 64.2% | 268.0 / inf | 313 | S952P (TCC→CCC) | sbcC | ATP‑dependent dsDNA exonuclease |
| * | NC_000913 | 493,371 | 0 | G | A | 64.0% | 303.3 / 255.7 | 264 | M24I (ATG→ATA) | ybaB | hypothetical protein |
| * | NC_000913 | 2,208,058 | 0 | T | C | 64.0% | 267.1 / 314.8 | 301 | G313G (GGT→GGC) | b2122 | hypothetical protein |
| Marginal new junction evidence (lowest skew 10 of 16 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1207028 | 171 (0.500) | 139 (0.490) | 81/152 | 3.0 | 53.4% | coding (305/630 nt) | ycfK | hypothetical protein |
| ? | NC_000913 | = 1208825 | 102 (0.360) | coding (57/540 nt) | b1157 | putative tail fiber protein | |||||
| * | ? | NC_000913 | 1207013 = | 180 (0.530) | 130 (0.460) | 77/152 | 3.6 | 49.5% | coding (290/630 nt) | ycfK | hypothetical protein |
| ? | NC_000913 | 1208842 = | 117 (0.410) | coding (40/540 nt) | b1157 | putative tail fiber protein | |||||
| * | ? | NC_000913 | = 4008398 | 137 (0.410) | 145 (0.440) +AAGA |
32/172 | 14.3 | 52.3% | coding (481/516 nt) | b4555 | hypothetical protein |
| ? | NC_000913 | 4008399 = | 137 (0.400) | coding (482/516 nt) | b4555 | hypothetical protein | |||||
| * | ? | NC_000913 | = 1208841 | 158 (0.460) | 26 (0.090) | 17/154 | 18.4 | 11.7% | coding (41/540 nt) | b1157 | putative tail fiber protein |
| ? | NC_000913 | 2469917 = | 259 (0.900) | coding (166/519 nt) | yfdL | putative RNA polymerase beta | |||||
| * | ? | NC_000913 | = 4540258 | 162 (0.470) | 11 (0.040) | 9/166 | 23.6 | 5.3% | intergenic (+57/‑425) | fimE/fimA | FimE/major type 1 subunit fimbrin |
| ? | NC_000913 | = 4540554 | 244 (0.790) | intergenic (+353/‑129) | fimE/fimA | FimE/major type 1 subunit fimbrin | |||||
| * | ? | NC_000913 | 4540250 = | 177 (0.520) | 6 (0.020) | 6/166 | 25.6 | 2.9% | intergenic (+49/‑433) | fimE/fimA | FimE/major type 1 subunit fimbrin |
| ? | NC_000913 | 4540564 = | 244 (0.790) | intergenic (+363/‑119) | fimE/fimA | FimE/major type 1 subunit fimbrin | |||||
| * | ? | NC_000913 | = 679422 | 318 (0.930) | 35 (0.110) | 7/178 | 25.7 | 10.2% | coding (692/708 nt) | ybeU | putative tRNA ligase |
| ? | NC_000913 | 687077 = | NA (NA) | intergenic (‑107/+143) | ybeJ/trs53 | putative periplasmic binding transport protein/IS5 transposase | |||||
| * | ? | NC_000913 | = 381812 | NA (NA) | 18 (0.050) | 5/180 | 27.3 | 6.3% | coding (303/387 nt) | b0362 | hypothetical protein |
| ? | NC_000913 | 578092 = | 275 (0.800) | coding (25/294 nt) | ybcU | Bor‑like protein | |||||
| * | ? | NC_000913 | = 578098 | 275 (0.800) | 18 (0.050) | 5/184 | 27.6 | 6.1% | coding (19/294 nt) | ybcU | Bor‑like protein |
| ? | NC_000913 | = 1467264 | NA (NA) | intergenic (‑46/‑118) | yi212/tra82 | hypothetical protein/IS30 transposase | |||||
| * | ? | NC_000913 | 721798 = | 287 (0.840) | 3 (0.010) | 3/166 | 28.2 | 1.2% | coding (1840/2685 nt) | kdpD | KdpD |
| ? | NC_000913 | = 721794 | 253 (0.820) | coding (1844/2685 nt) | kdpD | KdpD | |||||