mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.28.1 revision 52323b585d6f
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| JC | 2,204,804 | Δ120 bp | intergenic (‑239/‑54) | tqsA ← / → mdtJ | AI‑2 transporter TqsA/spermidine export protein MdtJ |
| RA | 3,668,924 | (T)5→6 | pseudogene (353/455 nt) | lpxA ← | hydroxymyristoyl‑ACP dehydratase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | DH1 | 2201863 | 2204971 | 3109 | 399 [394] | [396] 399 | [pntA]–tqsA | [pntA], pntB, tqsA |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | DH1 | 299568 = | NA (NA) | 328 (0.580) | 188/300 | 2.5 | 54.8% | noncoding (5/773 nt) | repeat_region | repeat region |
| ? | DH1 | 1971075 = | 271 (0.480) | coding (33/210 nt) | cspC | cold‑shock protein CspC | |||||
| * | ? | DH1 | = 1702500 | 220 (0.390) | 343 (0.620) | 193/292 | 1.5 | 61.7% | noncoding (5/1205 nt) | repeat_region | repeat region |
| ? | DH1 | 1703700 = | 211 (0.380) | noncoding (1205/1205 nt) | repeat_region | repeat region | |||||
| * | ? | DH1 | = 1967355 | 240 (0.420) | 287 (0.530) | 176/286 | 2.8 | 55.3% | noncoding (6/1206 nt) | repeat_region | repeat region |
| ? | DH1 | 1968555 = | 235 (0.430) | noncoding (1206/1206 nt) | repeat_region | repeat region | |||||
| * | ? | DH1 | = 2478888 | 224 (0.390) | 313 (0.570) | 187/290 | 1.9 | 56.0% | noncoding (5/1204 nt) | repeat_region | repeat region |
| ? | DH1 | 2480088 = | 276 (0.500) | intergenic (‑73/‑63) | insH1/fnr | transposase/fumarate and nitrate reduction regulatory protein | |||||
| * | ? | DH1 | = 2678609 | 258 (0.450) | 333 (0.600) | 190/292 | 1.8 | 55.6% | noncoding (1/1259 nt) | repeat_region | repeat region |
| ? | DH1 | 2679871 = | 280 (0.510) | intergenic (‑69/+280) | insE1/lit | transposase/bacteriophage T4 late gene expression‑blocking protein | |||||
| * | ? | DH1 | = 2788747 | 227 (0.400) | 293 (0.530) | 182/292 | 2.5 | 56.5% | noncoding (5/1206 nt) | repeat_region | repeat region |
| ? | DH1 | 2789947 = | 231 (0.420) | noncoding (1205/1206 nt) | repeat_region | repeat region | |||||
| * | ? | DH1 | = 3575873 | 312 (0.550) | 297 (0.540) | 182/292 | 2.5 | 51.0% | noncoding (3/1201 nt) | repeat_region | repeat region |
| ? | DH1 | 3577073 = | 267 (0.480) | intergenic (+151/‑282) | insH1/yagM | transposase/hypothetical protein | |||||
| * | ? | DH1 | 3970034 = | 353 (0.620) | 281 (0.530) | 172/282 | 2.9 | 45.5% | intergenic (‑120/‑94) | fimA/ECDH1_RS19620 | type‑1 fimbrial protein, A chain/hypothetical protein |
| ? | DH1 | 3970348 = | 341 (0.640) | intergenic (+32/+48) | ECDH1_RS19620/fimE | hypothetical protein/tyrosine recombinase | |||||
| * | ? | DH1 | = 3970042 | 351 (0.620) | 334 (0.620) | 191/282 | 1.2 | 49.9% | intergenic (‑128/‑86) | fimA/ECDH1_RS19620 | type‑1 fimbrial protein, A chain/hypothetical protein |
| ? | DH1 | = 3970338 | 341 (0.640) | intergenic (+22/+58) | ECDH1_RS19620/fimE | hypothetical protein/tyrosine recombinase | |||||
| * | ? | DH1 | = 3970987 | 262 (0.460) | 326 (0.610) | 192/282 | 1.1 | 55.2% | intergenic (‑37/+16) | fimE/insB1 | tyrosine recombinase/transposase |
| ? | DH1 | 3971764 = | 282 (0.530) | intergenic (‑258/+482) | insB1/fimB | transposase/tyrosine recombinase | |||||
| * | ? | DH1 | = 4079176 | 290 (0.510) | 321 (0.600) | 183/284 | 1.9 | 55.2% | noncoding (1/771 nt) | repeat_region | repeat region |
| ? | DH1 | 4079953 = | 247 (0.460) | intergenic (+24/+135) | insB1/ytfH | transposase/HxlR family transcriptional regulator | |||||