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 33 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | AP012306 | 1,091,992 | 0 | T | G | 42.4% | 495.5 / 71.5 | 290 | intergenic (+38/‑145) | narI/ychS | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/predicted protein |
| * | AP012306 | 1,944,288 | 0 | A | C | 38.6% | 404.6 / 54.0 | 228 | G361G (GGT→GGG) | menE | o‑succinylbenzoate‑CoA ligase |
| * | AP012306 | 1,226,557 | 0 | A | G | 31.5% | 327.4 / 101.5 | 181 | G55G (GGA→GGG) | ydcU | predicted spermidine/putrescine transporter subunit |
| * | AP012306 | 644,417 | 0 | G | A | 29.5% | 943.8 / inf | 576 | intergenic (+32/‑401) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A |
| * | AP012306 | 3,527,368 | 0 | A | C | 28.8% | 628.4 / 58.1 | 278 | L140F (TTA→TTC) | rhaS | DNA‑binding transcriptional activator, L‑rhamnose‑binding |
| * | AP012306 | 202,417 | 0 | T | G | 28.7% | 604.6 / 47.5 | 289 | V409G (GTA→GGA) | tilS | tRNA(Ile)‑lysidine synthetase |
| * | AP012306 | 1,421,147 | 0 | T | G | 27.5% | 424.9 / 14.0 | 220 | T79P (ACC→CCC) | ydhB | predicted DNA‑binding transcriptional regulator |
| * | AP012306 | 3,938,887 | 0 | C | T | 26.8% | 566.0 / 152.5 | 272 | S44F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator |
| * | AP012306 | 1,267,578 | 0 | T | G | 26.5% | 143.0 / 17.3 | 68 | D60A (GAC→GCC) | ddpB | D‑Ala‑D‑Ala transporter subunit |
| * | AP012306 | 3,282,076 | 0 | T | G | 26.4% | 557.2 / 17.1 | 252 | intergenic (‑79/+27) | ilvB/ivbL | acetolactate synthase I, large subunit/ilvB operon leader peptide |
| * | AP012306 | 341,377 | 0 | T | G | 25.4% | 230.0 / 12.3 | 123 | G60G (GGT→GGG) | ribD | fused diaminohydroxyphosphoribosylaminopyrimidin e deaminase and 5‑amino‑6‑(5‑phosphoribosylamino) uracil reductase |
| * | AP012306 | 800,675 | 0 | A | C | 25.1% | 692.6 / 36.4 | 280 | T192P (ACC→CCC) | lolA | chaperone for lipoproteins |
| * | AP012306 | 935,054 | 0 | G | T | 24.7% | 237.9 / 41.7 | 89 | intergenic (+24/‑1406) | putP/ycdO | proline:sodium symporter/conserved protein |
| * | AP012306 | 2,758,909 | 0 | T | G | 24.3% | 585.8 / 20.1 | 230 | G33G (GGT→GGG) | agaD | N‑acetylgalactosamine‑specific enzyme IID component of PTS |
| * | AP012306 | 2,212,753 | 0 | A | C | 24.0% | 376.7 / 34.8 | 154 | Y241D (TAT→GAT) | hcaT | predicted 3‑phenylpropionic transporter |
| * | AP012306 | 2,680,345 | 0 | A | C | 23.9% | 416.5 / 26.1 | 188 | T184P (ACC→CCC) | ttdA | L‑tartrate dehydratase, alpha subunit |
| * | AP012306 | 2,714,555 | 0 | T | G | 23.1% | 705.1 / 11.8 | 285 | T175P (ACC→CCC) | ygjV | conserved inner membrane protein |
| * | AP012306 | 1,128,412 | 0 | T | G | 22.9% | 802.5 / 37.0 | 306 | V29G (GTG→GGG) | yciO | conserved protein |
| * | AP012306 | 3,182,861 | 0 | A | C | 22.6% | 388.0 / 10.9 | 146 | L198F (TTA→TTC) | yiaN | predicted transporter |
| * | AP012306 | 3,618,842 | 0 | A | G | 22.5% | 927.8 / 51.3 | 360 | intergenic (+56/‑157) | rpoC/htrC | RNA polymerase, beta prime subunit/heat shock protein |
| Marginal new junction evidence (lowest skew 10 of 393 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | AP012306 | 644310 = | 359 (1.100) | 86 (0.270) +GAAG |
13/290 | 10.7 | 20.0% | noncoding (1/76 nt) | lysQ | tRNA‑Lys |
| ? | AP012306 | = 2073420 | 349 (1.070) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | AP012306 | = 1092512 | 396 (1.220) | 13 (0.050) | 10/258 | 11.0 | 3.9% | intergenic (+100/+3) | ychS/tpr | predicted protein/predicted protamine‑like protein |
| ? | AP012306 | 1092985 = | 305 (1.080) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | AP012306 | = 997497 | 306 (0.940) | 9 (0.030) | 9/268 | 11.5 | 3.2% | coding (41/1305 nt) | ndh | respiratory NADH dehydrogenase 2/cupric reductase |
| ? | AP012306 | 997993 = | 262 (0.900) | coding (537/1305 nt) | ndh | respiratory NADH dehydrogenase 2/cupric reductase | |||||
| * | ? | AP012306 | = 214142 | NA (NA) | 10 (0.030) | 10/288 | 11.5 | NA | noncoding (1511/1542 nt) | rrsH | 16S ribosomal RNA (rrsH) |
| ? | AP012306 | = 214154 | NA (NA) | noncoding (1523/1542 nt) | rrsH | 16S ribosomal RNA (rrsH) | |||||
| * | ? | AP012306 | 1865265 = | 159 (0.490) | 9 (0.030) | 9/274 | 11.6 | 5.7% | coding (7/1944 nt) | ccmF | heme lyase, CcmF subunit |
| ? | AP012306 | 1865277 = | 149 (0.500) | coding (471/480 nt) | ccmE | periplasmic heme chaperone | |||||
| * | ? | AP012306 | = 1728858 | 349 (1.070) | 9 (0.030) | 9/274 | 11.6 | 2.7% | coding (298/642 nt) | udk | uridine/cytidine kinase |
| ? | AP012306 | = 1728846 | 316 (1.060) | coding (310/642 nt) | udk | uridine/cytidine kinase | |||||
| * | ? | AP012306 | = 217413 | NA (NA) | 22 (0.070) +CCTTAAAGG |
9/280 | 11.7 | NA | noncoding (2794/2905 nt) | rrlH | 23S ribosomal RNA (rrlH) |
| ? | AP012306 | = 217413 | NA (NA) | noncoding (2794/2905 nt) | rrlH | 23S ribosomal RNA (rrlH) | |||||
| * | ? | AP012306 | = 3600658 | NA (NA) | 25 (0.080) | 9/292 | 11.8 | NA | noncoding (2805/2904 nt) | rrlB | 23S ribosomal RNA (rrlB) |
| ? | AP012306 | = 3642045 | NA (NA) | noncoding (2790/2904 nt) | rrlE | 23S ribosomal RNA (rrlE) | |||||
| * | ? | AP012306 | = 3800268 | 403 (1.240) | 8 (0.030) | 8/274 | 11.9 | 2.1% | coding (142/1647 nt) | groL | Cpn60 chaperonin GroEL, large subunit of GroESL |
| ? | AP012306 | = 3800256 | 375 (1.250) | coding (130/1647 nt) | groL | Cpn60 chaperonin GroEL, large subunit of GroESL | |||||
| * | ? | AP012306 | = 3331682 | 331 (1.020) | 10 (0.030) | 9/294 | 11.9 | 2.9% | coding (1233/1413 nt) | bglB | cryptic phospho‑beta‑glucosidase B |
| ? | AP012306 | = 3331695 | 341 (1.060) | coding (1220/1413 nt) | bglB | cryptic phospho‑beta‑glucosidase B | |||||