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 | ||
| * | NC_000913 | 4,168,221 | 0 | T | C | 43.4% | 216.1 / 279.9 | 196 | intergenic (+21/‑151) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| * | NC_000913 | 4,168,215 | 0 | A | T | 42.6% | 225.4 / 301.9 | 197 | intergenic (+15/‑157) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| * | NC_000913 | 4,168,472 | 0 | G | A | 31.3% | 164.9 / 110.5 | 115 | intergenic (+25/‑169) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 4,168,475 | 0 | G | T | 30.6% | 188.4 / 110.5 | 111 | intergenic (+28/‑166) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 4,168,476 | 0 | A | G | 30.6% | 166.0 / 106.0 | 111 | intergenic (+29/‑165) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| Marginal new junction evidence (lowest skew 10 of 18 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1207805 | 80 (1.030) | 19 (0.260) | 16/396 | 3.1 | 22.0% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 61 (0.850) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 381292 = | NA (NA) | 14 (0.190) | 9/410 | 4.9 | NA | noncoding (33/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 381312 = | NA (NA) | noncoding (53/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 1430276 = | 56 (0.720) | 6 (0.080) | 5/410 | 6.4 | 8.9% | coding (1228/3363 nt) | stfR | Rac prophage; putative membrane protein |
| ? | NC_000913 | 1430422 = | 69 (0.920) | coding (1374/3363 nt) | stfR | Rac prophage; putative membrane protein | |||||
| * | ? | NC_000913 | 2416930 = | 89 (1.140) | 4 (0.050) | 4/406 | 6.8 | 4.5% | intergenic (+39/‑151) | pta/yfcC | phosphate acetyltransferase/putative transporter YfcC |
| ? | NC_000913 | 2416957 = | 86 (1.160) | intergenic (+66/‑124) | pta/yfcC | phosphate acetyltransferase/putative transporter YfcC | |||||
| * | ? | NC_000913 | = 3579387 | 110 (1.410) | 6 (0.080) | 4/408 | 6.9 | 5.5% | coding (259/696 nt) | yhhW | quercetin 2,3‑dioxygenase |
| ? | NC_000913 | = 3579470 | 100 (1.350) | coding (176/696 nt) | yhhW | quercetin 2,3‑dioxygenase | |||||
| * | ? | NC_000913 | 2094274 = | 93 (1.190) | 4 (0.050) | 4/412 | 6.9 | 4.1% | coding (807/1068 nt) | hisB | imidazoleglycerol‑phosphate dehydratase/histidinol‑phosphatase |
| ? | NC_000913 | 2094336 = | 98 (1.310) | coding (869/1068 nt) | hisB | imidazoleglycerol‑phosphate dehydratase/histidinol‑phosphatase | |||||
| * | ? | NC_000913 | 1411899 = | 73 (0.940) | 3 (0.040) | 3/376 | 7.1 | 4.8% | coding (50/936 nt) | ttcA | tRNA cytosine(32) 2‑sulfurtransferase TtcA |
| ? | NC_000913 | = 1434958 | 56 (0.820) | pseudogene (51/51 nt) | ttcC | putative tRNA 2‑thiocytidine (s(2)C32) synthase | |||||
| * | ? | NC_000913 | = 4542690 | 62 (0.800) | 3 (0.040) | 3/410 | 7.4 | 4.9% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 57 (0.760) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 4542682 = | 68 (0.870) | 3 (0.040) | 3/410 | 7.4 | 4.7% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 57 (0.760) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 3620868 | NA (NA) | 3 (0.040) | 3/406 | 7.4 | 4.3% | coding (1677/4236 nt) | rhsB | rhs element protein RhsB |
| ? | NC_000913 | = 3621008 | 70 (0.900) | coding (1817/4236 nt) | rhsB | rhs element protein RhsB | |||||