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 | 8,770 | 0 | G | C | 63.1% | 225.0 / inf | 225 | A457P (GCA→CCA) ‡ | tnpA | Tn1 transposase |
| * | BN000925 | 8,771 | 0 | C | G | 62.9% | 213.2 / inf | 225 | A457G (GCA→GGA) ‡ | tnpA | Tn1 transposase |
| * | BN000925 | 8,772 | 0 | A | C | 62.8% | 527.6 / 316.6 | 225 | coding (1371/3006 nt) | tnpA | Tn1 transposase |
| * | BN000925 | 31,941 | 0 | C | G | 59.3% | 143.7 / inf | 232 | P89A (CCT→GCT) | upf31.7 | hypothetical protein |
| * | BN000925 | 31,939 | 0 | C | G | 59.1% | 139.3 / inf | 232 | P88R (CCG→CGG) ‡ | upf31.7 | hypothetical protein |
| * | BN000925 | 31,940 | 0 | G | C | 59.1% | 143.0 / inf | 232 | P88P (CCG→CCC) ‡ | upf31.7 | hypothetical protein |
| * | NC_000913 | 4,168,221 | 0 | T | C | 47.7% | 113.8 / 227.8 | 151 | intergenic (+21/‑151) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| * | NC_000913 | 4,168,215 | 0 | A | T | 46.3% | 127.0 / 245.4 | 150 | intergenic (+15/‑157) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| * | BN000925 | 31,938 | 0 | C | . | 41.2% | 520.7 / inf | 228 | coding (262/420 nt) | upf31.7 | hypothetical protein |
| * | BN000925 | 31,941 | 1 | . | G | 40.5% | 100.1 / inf | 232 | coding (265/420 nt) | upf31.7 | hypothetical protein |
| * | BN000925 | 8,767 | 1 | . | C | 36.0% | 200.2 / inf | 225 | coding (1366/3006 nt) | tnpA | Tn1 transposase |
| * | NC_000913 | 1,269,363 | 0 | T | C | 23.7% | 79.0 / 17.3 | 38 | noncoding (41/67 nt) | rdlA | putative antisense RNA regulator of LdrA |
| Marginal new junction evidence (lowest skew 10 of 16 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1207805 | 56 (1.050) | 9 (0.180) | 7/398 | 4.0 | 15.4% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 47 (0.950) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 381292 = | NA (NA) | 6 (0.120) | 6/412 | 4.4 | NA | noncoding (33/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 381312 = | NA (NA) | noncoding (53/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 2897255 = | 31 (0.580) | 5 (0.100) | 5/414 | 4.8 | 12.2% | coding (616/1338 nt) | ygcS | putative transporter YgcS |
| ? | NC_000913 | 2897354 = | 42 (0.820) | coding (517/1338 nt) | ygcS | putative transporter YgcS | |||||
| * | ? | NC_000913 | = 4373269 | NA (NA) | 4 (0.080) | 4/418 | 5.3 | NA | noncoding (28/34 nt) | other | REP328b |
| ? | NC_000913 | 4374576 = | NA (NA) | noncoding (22/29 nt) | other | REPv329b | |||||
| * | ? | NC_000913 | 4498180 = | NA (NA) | 4 (0.080) | 4/430 | 5.4 | NA | intergenic (+240/‑92) | intB/insC‑6 | KpLE2 phage‑like element; putative integrase/KpLE2 phage‑like element; IS2 insertion element repressor InsA |
| ? | NC_000913 | = 4499511 | NA (NA) | noncoding (1331/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 1467909 = | NA (NA) | 5 (0.090) | 4/430 | 5.4 | NA | pseudogene (2518/2518 nt) | ydbA | putative outer membrane protein, N‑terminal fragment |
| ? | NC_000913 | = 1469240 | NA (NA) | noncoding (1/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 2213244 | 39 (0.730) | 3 (0.060) | 3/410 | 5.7 | 8.3% | coding (1401/1686 nt) | btsS | high‑affinity pyruvate receptor |
| ? | NC_000913 | = 2213296 | 29 (0.570) | coding (1349/1686 nt) | btsS | high‑affinity pyruvate receptor | |||||
| * | ? | NC_000913 | = 510319 | 57 (1.070) | 3 (0.060) | 3/414 | 5.8 | 4.8% | coding (1061/2505 nt) | copA | Cu(+) exporting P‑type ATPase |
| ? | NC_000913 | = 510401 | 63 (1.230) | coding (979/2505 nt) | copA | Cu(+) exporting P‑type ATPase | |||||
| * | ? | BN000925 | = 45459 | 320 (1.190) | 7 (0.030) | 7/414 | 18.3 | 2.2% | coding (585/2214 nt) | traE | TraE putative helicase |
| ? | BN000925 | = 45489 | 316 (1.220) | coding (555/2214 nt) | traE | TraE putative helicase | |||||
| * | ? | BN000925 | = 6854 | 341 (1.270) | 7 (0.030) | 6/410 | 18.9 | 2.2% | noncoding (1363/4949 nt) | transposon:Tn1 | repeat region |
| ? | BN000925 | = 6901 | 295 (1.150) | noncoding (1410/4949 nt) | transposon:Tn1 | repeat region | |||||