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 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | BN000925 | 8,771 | 0 | C | G | 65.2% | 323.1 / inf | 296 | A457G (GCA→GGA) ‡ | tnpA | Tn1 transposase |
| * | BN000925 | 8,772 | 0 | A | C | 65.2% | 737.0 / inf | 296 | coding (1371/3006 nt) | tnpA | Tn1 transposase |
| * | BN000925 | 8,770 | 0 | G | C | 65.1% | 324.4 / inf | 296 | A457P (GCA→CCA) ‡ | tnpA | Tn1 transposase |
| * | BN000925 | 31,939 | 0 | C | G | 63.7% | 262.4 / inf | 251 | P88R (CCG→CGG) ‡ | upf31.7 | hypothetical protein |
| * | BN000925 | 31,940 | 0 | G | C | 63.7% | 257.0 / inf | 251 | P88P (CCG→CCC) ‡ | upf31.7 | hypothetical protein |
| * | BN000925 | 31,941 | 0 | C | G | 63.7% | 266.9 / inf | 251 | P89A (CCT→GCT) | upf31.7 | hypothetical protein |
| * | NC_000913 | 4,168,221 | 0 | T | C | 50.3% | 98.1 / 272.7 | 157 | intergenic (+21/‑151) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| * | NC_000913 | 4,168,215 | 0 | A | T | 48.7% | 112.1 / 270.0 | 154 | intergenic (+15/‑157) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| * | BN000925 | 31,938 | 0 | C | . | 36.4% | 629.0 / inf | 250 | coding (262/420 nt) | upf31.7 | hypothetical protein |
| * | BN000925 | 31,941 | 1 | . | G | 36.2% | 215.7 / inf | 251 | coding (265/420 nt) | upf31.7 | hypothetical protein |
| * | BN000925 | 8,767 | 1 | . | C | 34.8% | 305.0 / inf | 296 | coding (1366/3006 nt) | tnpA | Tn1 transposase |
| * | NC_000913 | 4,168,472 | 0 | G | A | 33.0% | 156.3 / 104.8 | 112 | intergenic (+25/‑169) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 4,168,475 | 0 | G | T | 32.4% | 174.6 / 116.1 | 108 | intergenic (+28/‑166) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 4,168,476 | 0 | A | G | 32.4% | 160.1 / 104.6 | 108 | intergenic (+29/‑165) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| Marginal new junction evidence (lowest skew 10 of 13 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 381292 = | NA (NA) | 10 (0.160) | 7/404 | 5.0 | NA | noncoding (33/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 381312 = | NA (NA) | noncoding (53/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 3880655 | 91 (1.360) | 4 (0.060) | 4/402 | 6.2 | 4.8% | coding (567/1074 nt) | recF | DNA repair protein RecF |
| ? | NC_000913 | = 3880717 | 73 (1.150) | coding (505/1074 nt) | recF | DNA repair protein RecF | |||||
| * | ? | NC_000913 | 725740 = | 60 (0.900) | 3 (0.050) | 3/402 | 6.8 | 5.0% | coding (1297/2049 nt) | kdpB | K(+) transporting P‑type ATPase subunit KdpB |
| ? | NC_000913 | 726172 = | 57 (0.900) | coding (865/2049 nt) | kdpB | K(+) transporting P‑type ATPase subunit KdpB | |||||
| * | ? | BN000925 | = 45100 | 342 (1.110) | 11 (0.040) | 7/406 | 18.0 | 3.0% | coding (944/2214 nt) | traE | TraE putative helicase |
| ? | BN000925 | = 45145 | 374 (1.260) | coding (899/2214 nt) | traE | TraE putative helicase | |||||
| * | ? | BN000925 | 45612 = | 319 (1.030) | 7 (0.020) | 6/408 | 18.7 | 2.2% | coding (432/2214 nt) | traE | TraE putative helicase |
| ? | BN000925 | 45669 = | 326 (1.090) | coding (375/2214 nt) | traE | TraE putative helicase | |||||
| * | ? | BN000925 | 40773 = | 220 (0.710) | 6 (0.020) | 5/406 | 19.3 | 2.7% | coding (1837/2241 nt) coding (2782/3186 nt) |
traC2 traC1 |
TraC DNA primase TraC DNA primase and ssDNA binding protein |
| ? | BN000925 | 40847 = | 216 (0.730) | coding (1763/2241 nt) coding (2708/3186 nt) |
traC2 traC1 |
TraC DNA primase TraC DNA primase and ssDNA binding protein |
|||||
| * | ? | BN000925 | = 48906 | 306 (0.990) | 4 (0.010) | 4/406 | 20.1 | 1.5% | coding (1785/2199 nt) coding (245/360 nt) |
traI traH |
TraI DNA relaxase TraH protein |
| ? | BN000925 | = 49012 | 225 (0.760) | coding (1679/2199 nt) coding (139/360 nt) |
traI traH |
TraI DNA relaxase TraH protein |
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| * | ? | BN000925 | = 27591 | 287 (0.930) | 5 (0.020) | 4/408 | 20.1 | 1.8% | coding (142/210 nt) | trbK | TrbK entry exclusion protein |
| ? | BN000925 | = 27608 | 278 (0.930) | coding (159/210 nt) | trbK | TrbK entry exclusion protein | |||||
| * | ? | BN000925 | 53361 = | 387 (1.250) | 3 (0.010) | 3/402 | 20.8 | 0.79% | coding (1065/1347 nt) | kfrC | KfrC protein |
| ? | BN000925 | = 53357 | 381 (1.290) | coding (1069/1347 nt) | kfrC | KfrC protein | |||||
| * | ? | BN000925 | = 44768 | 328 (1.060) | 3 (0.010) | 3/404 | 20.8 | 0.88% | coding (1276/2214 nt) | traE | TraE putative helicase |
| ? | BN000925 | = 44873 | 363 (1.230) | coding (1171/2214 nt) | traE | TraE putative helicase | |||||