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 | 31,941 | 0 | C | G | 65.5% | 318.9 / inf | 282 | P89A (CCT→GCT) | upf31.7 | hypothetical protein |
| * | BN000925 | 31,939 | 0 | C | G | 65.4% | 309.1 / inf | 280 | P88R (CCG→CGG) ‡ | upf31.7 | hypothetical protein |
| * | BN000925 | 31,940 | 0 | G | C | 65.2% | 315.9 / inf | 282 | P88P (CCG→CCC) ‡ | upf31.7 | hypothetical protein |
| * | BN000925 | 8,772 | 0 | A | C | 61.7% | 664.6 / inf | 283 | coding (1371/3006 nt) | tnpA | Tn1 transposase |
| * | BN000925 | 8,770 | 0 | G | C | 61.5% | 221.4 / inf | 283 | A457P (GCA→CCA) ‡ | tnpA | Tn1 transposase |
| * | BN000925 | 8,771 | 0 | C | G | 61.5% | 224.7 / inf | 283 | A457G (GCA→GGA) ‡ | tnpA | Tn1 transposase |
| * | NC_000913 | 4,168,221 | 0 | T | C | 47.9% | 147.9 / 293.3 | 186 | intergenic (+21/‑151) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| * | NC_000913 | 4,168,215 | 0 | A | T | 47.6% | 150.7 / inf | 185 | intergenic (+15/‑157) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| * | BN000925 | 8,767 | 1 | . | C | 38.5% | 177.6 / inf | 283 | coding (1366/3006 nt) | tnpA | Tn1 transposase |
| * | BN000925 | 31,938 | 0 | C | . | 34.4% | 701.6 / inf | 276 | coding (262/420 nt) | upf31.7 | hypothetical protein |
| * | BN000925 | 31,941 | 1 | . | G | 34.4% | 297.4 / inf | 282 | coding (265/420 nt) | upf31.7 | hypothetical protein |
| * | NC_000913 | 4,168,472 | 0 | G | A | 32.4% | 146.6 / 110.1 | 111 | intergenic (+25/‑169) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 4,168,475 | 0 | G | T | 31.1% | 168.8 / 105.8 | 106 | intergenic (+28/‑166) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 4,168,476 | 0 | A | G | 30.2% | 161.7 / 92.8 | 106 | intergenic (+29/‑165) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| 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 | 381292 = | NA (NA) | 9 (0.150) | 7/410 | 4.9 | NA | noncoding (33/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 381312 = | NA (NA) | noncoding (53/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 4542690 | 54 (0.840) | 4 (0.060) | 4/410 | 6.1 | 6.2% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 70 (1.140) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 1430276 = | 28 (0.440) | 5 (0.080) | 4/410 | 6.1 | 12.4% | coding (1228/3363 nt) | stfR | Rac prophage; putative membrane protein |
| ? | NC_000913 | 1430422 = | 44 (0.710) | coding (1374/3363 nt) | stfR | Rac prophage; putative membrane protein | |||||
| * | ? | NC_000913 | 725947 = | 66 (1.030) | 3 (0.050) | 3/412 | 6.7 | 4.2% | coding (1090/2049 nt) | kdpB | K(+) transporting P‑type ATPase subunit KdpB |
| ? | NC_000913 | 726066 = | 73 (1.180) | coding (971/2049 nt) | kdpB | K(+) transporting P‑type ATPase subunit KdpB | |||||
| * | ? | BN000925 | = 6854 | 389 (1.260) | 8 (0.030) | 8/408 | 19.4 | 2.2% | noncoding (1363/4949 nt) | transposon:Tn1 | repeat region |
| ? | BN000925 | = 6901 | 349 (1.190) | noncoding (1410/4949 nt) | transposon:Tn1 | repeat region | |||||
| * | ? | BN000925 | = 6981 | 349 (1.130) | 6 (0.020) | 6/408 | 20.7 | 1.8% | noncoding (1490/4949 nt) | transposon:Tn1 | repeat region |
| ? | BN000925 | = 7020 | 331 (1.130) | noncoding (1529/4949 nt) | transposon:Tn1 | repeat region | |||||
| * | ? | BN000925 | = 27591 | 309 (1.000) | 5 (0.020) | 5/414 | 21.6 | 1.6% | coding (142/210 nt) | trbK | TrbK entry exclusion protein |
| ? | BN000925 | = 27608 | 316 (1.060) | coding (159/210 nt) | trbK | TrbK entry exclusion protein | |||||
| * | ? | BN000925 | 58806 = | 342 (1.110) | 5 (0.020) | 5/416 | 21.7 | 1.6% | coding (231/780 nt) coding (546/1095 nt) |
incC incC |
IncC partitioning protein IncC partitioning protein |
| ? | BN000925 | 58842 = | 297 (0.990) | coding (195/780 nt) coding (510/1095 nt) |
incC incC |
IncC partitioning protein IncC partitioning protein |
|||||
| * | ? | BN000925 | = 58655 | 341 (1.110) | 4 (0.010) | 4/414 | 22.4 | 1.1% | coding (382/780 nt) coding (697/1095 nt) |
incC incC |
IncC partitioning protein IncC partitioning protein |
| ? | BN000925 | = 58707 | 379 (1.270) | coding (330/780 nt) coding (645/1095 nt) |
incC incC |
IncC partitioning protein IncC partitioning protein |
|||||
| * | ? | BN000925 | 1377 = | 314 (1.020) | 4 (0.010) | 4/412 | 22.4 | 1.3% | coding (126/1137 nt) | klaB | KlaB protein |
| ? | BN000925 | 1434 = | 323 (1.090) | coding (69/1137 nt) | klaB | KlaB protein | |||||