mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 47 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 1,427,992 | 0 | G | T | 42.6% | 115.8 / 35.0 | 129 | P245P (CCC→CCA) | insH5 | IS5 family transposase and trans‑activator |
| * | NC_000913 | 3,054,894 | 0 | G | T | 40.0% | 100.6 / 39.4 | 95 | P184Q (CCA→CAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 4,296,191 | 0 | A | C | 40.0% | 9.5 / 20.5 | 30 | intergenic (+397/+245) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 2,433,340 | 0 | G | T | 39.7% | 104.7 / 16.2 | 78 | S196Y (TCC→TAC) | accD | acetyl‑CoA carboxyltransferase subunit beta |
| * | NC_000913 | 3,911,533 | 0 | C | A | 37.1% | 203.1 / 28.1 | 143 | intergenic (‑8/+306) | pstS/glmS | phosphate ABC transporter periplasmic binding protein/L‑glutamine‑‑D‑fructose‑6‑phosphate aminotransferase |
| * | NC_000913 | 2,159,413 | 0 | C | T | 36.8% | 63.5 / 24.5 | 57 | A343V (GCG→GTG) | mdtC | multidrug efflux pump RND permease subunit MdtC |
| * | NC_000913 | 3,054,886 | 0 | G | T | 36.4% | 140.4 / 33.9 | 100 | Q187K (CAA→AAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 2,477,265 | 0 | A | C | 36.0% | 160.2 / 31.6 | 100 | L122* (TTA→TGA) | dsdC | DNA‑binding transcriptional dual regulator DsdC |
| * | NC_000913 | 3,226,224 | 0 | G | T | 31.9% | 235.3 / 17.7 | 135 | intergenic (+53/‑10) | ebgC/ygjI | DUF386 domain‑containing evolved beta‑D‑galactosidase subunit beta/putative transporter YgjI |
| * | NC_000913 | 58,065 | 0 | C | A | 30.6% | 179.1 / 14.1 | 108 | P234P (CCC→CCA) | djlA | co‑chaperone protein DjlA |
| * | NC_000913 | 12,152 | 0 | G | T | 30.2% | 199.7 / 19.6 | 126 | intergenic (‑366/‑11) | yaaI/dnaK | DUF2541 domain‑containing protein YaaI/chaperone protein DnaK |
| * | NC_000913 | 1,823,018 | 0 | C | A | 30.1% | 143.6 / 11.8 | 103 | L187L (CTC→CTA) | nadE | NH3‑dependent NAD(+) synthetase |
| * | NC_000913 | 4,296,190 | 0 | A | G | 30.0% | 25.3 / 19.1 | 30 | intergenic (+396/+246) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 2,767,445 | 0 | C | A | 29.9% | 200.4 / 21.8 | 120 | intergenic (+90/‑265) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 2,767,449 | 0 | C | A | 29.8% | 220.2 / 22.8 | 123 | intergenic (+94/‑261) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 866,319 | 0 | C | A | 28.7% | 181.7 / 10.4 | 122 | E16* (GAG→TAG) | moeA | molybdopterin molybdotransferase |
| * | NC_000913 | 1,097,158 | 0 | C | T | 28.6% | 40.5 / 18.3 | 42 | intergenic (+329/+407) | ycdU/serX | uncharacterized protein YcdU/tRNA‑Ser |
| * | NC_000913 | 2,767,444 | 0 | C | A | 28.2% | 205.8 / 17.5 | 120 | intergenic (+89/‑266) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 4,360,965 | 0 | C | A | 28.0% | 323.6 / 23.3 | 150 | E324* (GAG→TAG) | cadC | DNA‑binding transcriptional activator CadC |
| * | NC_000913 | 1,470,627 | 0 | C | A | 28.0% | 322.8 / 24.3 | 161 | pseudogene (109/3495 nt) | ydbA | putative outer membrane protein, N‑terminal fragment |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 4606166 | 114 (1.010) | 10 (0.130) | 10/420 | 5.6 | 11.6% | intergenic (‑1/+34) | leuV/leuP | tRNA‑Leu/tRNA‑Leu |
| ? | NC_000913 | 4606403 = | 73 (0.920) | intergenic (‑2/+266) | leuQ/rsmC | tRNA‑Leu/16S rRNA m(2)G1207 methyltransferase | |||||
| * | ? | NC_000913 | = 1287329 | 76 (0.680) | 8 (0.100) | 7/424 | 6.9 | 13.1% | intergenic (‑1/+209) | tyrV/tyrT | tRNA‑Tyr/tRNA‑Tyr |
| ? | NC_000913 | 1287624 = | 52 (0.650) | intergenic (‑2/+158) | tyrT/purU | tRNA‑Tyr/formyltetrahydrofolate deformylase | |||||
| * | ? | NC_000913 | = 2818275 | 48 (0.430) | 6 (0.070) | 5/440 | 8.2 | 10.9% | intergenic (‑1/+198) | argY/argV | tRNA‑Arg/tRNA‑Arg |
| ? | NC_000913 | 2818551 = | 63 (0.760) | intergenic (‑2/+2) | argV/serV | tRNA‑Arg/tRNA‑Ser | |||||
| * | ? | NC_000913 | = 696741 | 76 (0.680) | 4 (0.050) | 4/442 | 8.8 | 7.0% | intergenic (‑1/+15) | metU/glnW | tRNA‑Met/tRNA‑Gln |
| ? | NC_000913 | 697135 = | 50 (0.600) | intergenic (‑2/+378) | metT/asnB | tRNA‑Met/asparagine synthetase B | |||||
| * | ? | NC_000913 | = 4325838 | 73 (0.650) | 4 (0.040) | 4/566 | 10.4 | 5.8% | intergenic (‑97/+561) | yjdN/yjdM | PF06983 family protein YjdN/zinc ribbon domain‑containing protein YjdM |
| ? | NC_000913 | 4326339 = | 60 (0.560) | intergenic (‑598/+60) | yjdN/yjdM | PF06983 family protein YjdN/zinc ribbon domain‑containing protein YjdM | |||||
| * | ? | NC_000913 | = 1287084 | 51 (0.450) | 4 (0.040) | 3/558 | 11.0 | 6.6% | noncoding (153/171 nt) | rttR | small RNA RttR |
| ? | NC_000913 | 1287557 = | 65 (0.620) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | = 1286906 | 63 (0.560) | 4 (0.040) | 3/558 | 11.0 | 6.1% | coding (198/276 nt) | ychS | putative uncharacterized protein YchS |
| ? | NC_000913 | 1287557 = | 65 (0.620) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||