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 | 43.1% | 446.9 / 108.6 | 297 | intergenic (+38/‑145) | narI/ychS | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/predicted protein |
| * | AP012306 | 341,377 | 0 | T | G | 35.0% | 176.5 / 29.9 | 120 | G60G (GGT→GGG) | ribD | fused diaminohydroxyphosphoribosylaminopyrimidin e deaminase and 5‑amino‑6‑(5‑phosphoribosylamino) uracil reductase |
| * | AP012306 | 644,417 | 0 | G | A | 31.3% | 831.7 / inf | 553 | intergenic (+32/‑401) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A |
| * | AP012306 | 1,944,288 | 0 | A | C | 31.0% | 555.2 / 51.8 | 255 | G361G (GGT→GGG) | menE | o‑succinylbenzoate‑CoA ligase |
| * | AP012306 | 3,938,887 | 0 | C | T | 30.3% | 529.8 / 191.8 | 284 | S44F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator |
| * | AP012306 | 2,758,909 | 0 | T | G | 29.9% | 509.7 / 27.6 | 217 | G33G (GGT→GGG) | agaD | N‑acetylgalactosamine‑specific enzyme IID component of PTS |
| * | AP012306 | 800,675 | 0 | A | C | 28.6% | 647.8 / 38.0 | 269 | T192P (ACC→CCC) | lolA | chaperone for lipoproteins |
| * | AP012306 | 2,714,555 | 0 | T | G | 28.1% | 687.4 / 14.5 | 291 | T175P (ACC→CCC) | ygjV | conserved inner membrane protein |
| * | AP012306 | 1,128,412 | 0 | T | G | 28.1% | 692.0 / 67.2 | 293 | V29G (GTG→GGG) | yciO | conserved protein |
| * | AP012306 | 1,854,851 | 0 | A | C | 27.4% | 727.9 / 72.0 | 292 | T25P (ACC→CCC) | yejH | predicted ATP‑dependet helicase |
| * | AP012306 | 3,527,368 | 0 | A | C | 26.9% | 633.0 / 57.8 | 253 | L140F (TTA→TTC) | rhaS | DNA‑binding transcriptional activator, L‑rhamnose‑binding |
| * | AP012306 | 1,226,557 | 0 | A | G | 25.4% | 407.5 / 81.0 | 185 | G55G (GGA→GGG) | ydcU | predicted spermidine/putrescine transporter subunit |
| * | AP012306 | 1,393,379 | 0 | A | C | 24.0% | 742.5 / 44.9 | 275 | T92P (ACC→CCC) | nth | DNA glycosylase and apyrimidinic (AP) lyase |
| * | AP012306 | 3,324,433 | 0 | T | A | 23.9% | 619.1 / 89.4 | 243 | intergenic (+2/+52) | yieF/yieG | chromate reductase, Class I, flavoprotein/predicted inner membrane protein |
| * | AP012306 | 406,677 | 0 | A | G | 23.7% | 595.7 / 21.0 | 236 | K294E (AAA→GAA) | hemH | ferrochelatase |
| * | AP012306 | 2,212,753 | 0 | A | C | 23.6% | 428.8 / 51.8 | 165 | Y241D (TAT→GAT) | hcaT | predicted 3‑phenylpropionic transporter |
| * | AP012306 | 2,376,612 | 0 | T | G | 23.2% | 605.3 / 19.8 | 221 | V326G (GTA→GGA) | ygbN | predicted transporter |
| * | AP012306 | 524,297 | 0 | C | T | 23.0% | 503.3 / 59.0 | 204 | M1M (ATG→ATA) † | citD | citrate lyase, acyl carrier (gamma) subunit |
| * | AP012306 | 3,903,791 | 0 | A | G | 22.9% | 616.4 / 60.4 | 253 | E189G (GAA→GGA) | yjgJ | predicted transcriptional regulator |
| * | AP012306 | 3,590,367 | 0 | A | C | 22.6% | 812.5 / 32.7 | 294 | T30P (ACC→CCC) | fabR | DNA‑binding transcriptional repressor |
| Marginal new junction evidence (lowest skew 10 of 78 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | AP012306 | 644310 = | 349 (1.080) | 93 (0.300) +GAAG |
12/290 | 16.1 | 21.1% | noncoding (1/76 nt) | lysQ | tRNA‑Lys |
| ? | AP012306 | = 2073420 | 365 (1.130) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | AP012306 | 644102 = | 466 (1.440) | 26 (0.080) +GAAG |
10/290 | 16.9 | 6.0% | noncoding (1/76 nt) | lysZ | tRNA‑Lys |
| ? | AP012306 | = 2073420 | 365 (1.130) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | AP012306 | 643287 = | 410 (1.270) | 25 (0.080) +GAAG |
10/290 | 16.9 | 6.2% | noncoding (1/76 nt) | lysT | tRNA‑Lys |
| ? | AP012306 | = 2073420 | 365 (1.130) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | AP012306 | 644102 = | 466 (1.440) | 27 (0.080) +G |
8/296 | 17.9 | 6.6% | noncoding (1/76 nt) | lysZ | tRNA‑Lys |
| ? | AP012306 | = 2073541 | 309 (0.960) | intergenic (+1/‑46) | valX/valY | tRNA‑Val/tRNA‑Val | |||||
| * | ? | AP012306 | 644102 = | 466 (1.440) | 26 (0.080) +GG |
7/294 | 18.4 | 6.0% | noncoding (1/76 nt) | lysZ | tRNA‑Lys |
| ? | AP012306 | = 2073420 | 365 (1.130) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | AP012306 | 2999833 = | 303 (0.940) | 5 (0.020) | 5/270 | 18.9 | 1.8% | intergenic (+32/+79) | gntT/malQ | gluconate transporter, high‑affinity GNT I system/4‑alpha‑glucanotransferase (amylomaltase) |
| ? | AP012306 | 2999877 = | 257 (0.880) | intergenic (+76/+35) | gntT/malQ | gluconate transporter, high‑affinity GNT I system/4‑alpha‑glucanotransferase (amylomaltase) | |||||
| * | ? | AP012306 | = 2359634 | 244 (0.750) | 5 (0.020) | 5/288 | 19.3 | 2.1% | coding (143/1827 nt) | hycC | hydrogenase 3, membrane subunit |
| ? | AP012306 | = 2359655 | 242 (0.770) | coding (122/1827 nt) | hycC | hydrogenase 3, membrane subunit | |||||
| * | ? | AP012306 | = 215364 | NA (NA) | 5 (0.020) | 5/288 | 19.3 | NA | noncoding (745/2905 nt) | rrlH | 23S ribosomal RNA (rrlH) |
| ? | AP012306 | = 215372 | NA (NA) | noncoding (753/2905 nt) | rrlH | 23S ribosomal RNA (rrlH) | |||||
| * | ? | AP012306 | = 1579690 | 280 (0.870) | 5 (0.020) | 5/294 | 19.5 | 1.8% | coding (1118/1599 nt) | yoaD | predicted phosphodiesterase |
| ? | AP012306 | = 1579706 | 272 (0.850) | coding (1134/1599 nt) | yoaD | predicted phosphodiesterase | |||||
| * | ? | AP012306 | 1470402 = | 371 (1.150) | 5 (0.020) | 5/296 | 19.5 | 1.3% | coding (385/1047 nt) | aroH | 3‑deoxy‑D‑arabino‑heptulosonate‑7‑phosphate synthase, tryptophan repressible |
| ? | AP012306 | 1470418 = | 389 (1.210) | coding (401/1047 nt) | aroH | 3‑deoxy‑D‑arabino‑heptulosonate‑7‑phosphate synthase, tryptophan repressible | |||||