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 25 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | AP012306 | 3,868,714 | 0 | C | T | 69.7% | 600.7 / inf | 376 | P9L (CCA→CTA) | ytfK | conserved protein |
| * | AP012306 | 713,244 | 0 | C | T | 69.7% | 586.9 / inf | 379 | S21F (TCC→TTC) | ompX | outer membrane protein |
| * | AP012306 | 1,091,992 | 0 | T | G | 45.1% | 306.8 / 80.0 | 226 | intergenic (+38/‑145) | narI/ychS | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/predicted protein |
| * | AP012306 | 1,944,288 | 0 | A | C | 35.1% | 446.8 / 53.0 | 225 | G361G (GGT→GGG) | menE | o‑succinylbenzoate‑CoA ligase |
| * | AP012306 | 341,377 | 0 | T | G | 33.9% | 195.9 / 21.4 | 126 | G60G (GGT→GGG) | ribD | fused diaminohydroxyphosphoribosylaminopyrimidin e deaminase and 5‑amino‑6‑(5‑phosphoribosylamino) uracil reductase |
| * | AP012306 | 644,417 | 0 | G | A | 31.4% | 835.7 / inf | 567 | intergenic (+32/‑401) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A |
| * | AP012306 | 3,527,368 | 0 | A | C | 29.4% | 521.1 / 55.1 | 232 | L140F (TTA→TTC) | rhaS | DNA‑binding transcriptional activator, L‑rhamnose‑binding |
| * | AP012306 | 1,226,557 | 0 | A | G | 27.7% | 357.1 / 84.7 | 177 | G55G (GGA→GGG) | ydcU | predicted spermidine/putrescine transporter subunit |
| * | AP012306 | 3,938,887 | 0 | C | T | 26.5% | 507.1 / 129.0 | 238 | S44F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator |
| * | AP012306 | 800,675 | 0 | A | C | 26.2% | 617.3 / 29.6 | 263 | T192P (ACC→CCC) | lolA | chaperone for lipoproteins |
| * | AP012306 | 3,361,617 | 0 | G | . | 25.0% | 851.1 / 293.5 | 285 | coding (1089/1869 nt) | trkD | potassium transporter |
| * | AP012306 | 3,361,618 | 0 | G | . | 25.0% | 857.3 / 293.5 | 285 | coding (1090/1869 nt) | trkD | potassium transporter |
| * | AP012306 | 3,361,619 | 0 | C | . | 24.9% | 861.1 / 295.5 | 285 | coding (1091/1869 nt) | trkD | potassium transporter |
| * | AP012306 | 3,282,076 | 0 | T | G | 24.9% | 536.1 / 14.4 | 238 | intergenic (‑79/+27) | ilvB/ivbL | acetolactate synthase I, large subunit/ilvB operon leader peptide |
| * | AP012306 | 2,212,753 | 0 | A | C | 24.1% | 363.4 / 36.0 | 142 | Y241D (TAT→GAT) | hcaT | predicted 3‑phenylpropionic transporter |
| * | AP012306 | 3,590,367 | 0 | A | C | 23.9% | 681.0 / 30.7 | 263 | T30P (ACC→CCC) | fabR | DNA‑binding transcriptional repressor |
| * | AP012306 | 2,758,909 | 0 | T | G | 23.7% | 576.0 / 16.0 | 211 | G33G (GGT→GGG) | agaD | N‑acetylgalactosamine‑specific enzyme IID component of PTS |
| * | AP012306 | 3,903,791 | 0 | A | G | 23.6% | 586.5 / 54.7 | 242 | E189G (GAA→GGA) | yjgJ | predicted transcriptional regulator |
| * | AP012306 | 1,854,851 | 0 | A | C | 23.6% | 696.0 / 62.5 | 275 | T25P (ACC→CCC) | yejH | predicted ATP‑dependet helicase |
| * | AP012306 | 3,645,642 | 0 | A | C | 22.5% | 909.8 / 34.8 | 347 | T318P (ACC→CCC) | aceB | malate synthase A |
| Marginal new junction evidence (lowest skew 10 of 166 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | AP012306 | 3361620 = | 232 (0.710) | 80 (0.260) | 70/284 | 4.5 | 26.5% | coding (1092/1869 nt) | trkD | potassium transporter |
| ? | AP012306 | = 3361616 | 222 (0.720) | coding (1088/1869 nt) | trkD | potassium transporter | |||||
| * | ? | AP012306 | = 1075430 | 451 (1.390) | 32 (0.100) | 30/298 | 9.5 | 8.2% | intergenic (‑192/+236) | ldrB/ldrC | toxic polypeptide, small/toxic polypeptide, small |
| ? | AP012306 | 1080383 = | 269 (0.830) | coding (1031/1254 nt) | ychP | predicted invasin | |||||
| * | ? | AP012306 | = 997497 | 346 (1.060) | 16 (0.050) | 15/268 | 12.2 | 5.3% | coding (41/1305 nt) | ndh | respiratory NADH dehydrogenase 2/cupric reductase |
| ? | AP012306 | 997993 = | 260 (0.890) | coding (537/1305 nt) | ndh | respiratory NADH dehydrogenase 2/cupric reductase | |||||
| * | ? | AP012306 | = 2310287 | 469 (1.440) | 17 (0.050) | 17/298 | 12.3 | 4.6% | coding (243/345 nt) | ygaC | predicted protein |
| ? | AP012306 | 2316570 = | 236 (0.730) | coding (26/1065 nt) | proW | glycine betaine transporter subunit | |||||
| * | ? | AP012306 | = 3460583 | 295 (0.910) | 13 (0.040) | 12/288 | 13.5 | 4.3% | coding (210/1332 nt) | pepQ | proline dipeptidase |
| ? | AP012306 | 3460633 = | 293 (0.930) | coding (260/1332 nt) | pepQ | proline dipeptidase | |||||
| * | ? | AP012306 | = 1092512 | 380 (1.170) | 15 (0.050) | 10/258 | 13.5 | 4.6% | intergenic (+100/+3) | ychS/tpr | predicted protein/predicted protamine‑like protein |
| ? | AP012306 | 1092985 = | 287 (1.020) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | AP012306 | = 1092334 | 347 (1.070) | 11 (0.040) | 10/258 | 13.5 | 3.6% | coding (198/276 nt) | ychS | predicted protein |
| ? | AP012306 | 1092985 = | 287 (1.020) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | AP012306 | = 3600658 | NA (NA) | 40 (0.130) | 10/292 | 14.3 | NA | noncoding (2805/2904 nt) | rrlB | 23S ribosomal RNA (rrlB) |
| ? | AP012306 | = 3642045 | NA (NA) | noncoding (2790/2904 nt) | rrlE | 23S ribosomal RNA (rrlE) | |||||
| * | ? | AP012306 | 1080383 = | 269 (0.830) | 9 (0.030) +21 bp |
8/256 | 14.3 | 3.2% | coding (1031/1254 nt) | ychP | predicted invasin |
| ? | AP012306 | = 3139166 | 369 (1.140) | intergenic (‑172/‑304) | ldrD/yhjV | toxic polypeptide, small/predicted transporter | |||||
| * | ? | AP012306 | = 215364 | NA (NA) | 10 (0.030) | 9/288 | 14.6 | NA | noncoding (745/2905 nt) | rrlH | 23S ribosomal RNA (rrlH) |
| ? | AP012306 | = 215372 | NA (NA) | noncoding (753/2905 nt) | rrlH | 23S ribosomal RNA (rrlH) | |||||