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 | 8,772 | 0 | A | C | 60.5% | 519.4 / inf | 229 | coding (1371/3006 nt) | tnpA | Tn1 transposase |
| * | BN000925 | 8,770 | 0 | G | C | 60.3% | 160.5 / inf | 229 | A457P (GCA→CCA) ‡ | tnpA | Tn1 transposase |
| * | BN000925 | 8,771 | 0 | C | G | 60.3% | 161.2 / inf | 229 | A457G (GCA→GGA) ‡ | tnpA | Tn1 transposase |
| * | BN000925 | 31,939 | 0 | C | G | 58.5% | 114.3 / inf | 224 | P88R (CCG→CGG) ‡ | upf31.7 | hypothetical protein |
| * | BN000925 | 31,941 | 0 | C | G | 58.5% | 124.9 / inf | 225 | P89A (CCT→GCT) | upf31.7 | hypothetical protein |
| * | BN000925 | 31,940 | 0 | G | C | 57.8% | 110.0 / inf | 225 | P88P (CCG→CCC) ‡ | upf31.7 | hypothetical protein |
| * | BN000925 | 31,938 | 0 | C | . | 41.6% | 497.0 / inf | 221 | coding (262/420 nt) | upf31.7 | hypothetical protein |
| * | BN000925 | 31,941 | 1 | . | G | 41.3% | 73.2 / inf | 225 | coding (265/420 nt) | upf31.7 | hypothetical protein |
| * | NC_000913 | 4,168,221 | 0 | T | C | 40.0% | 281.0 / 286.4 | 220 | intergenic (+21/‑151) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| * | BN000925 | 8,767 | 1 | . | C | 39.3% | 122.5 / inf | 229 | coding (1366/3006 nt) | tnpA | Tn1 transposase |
| * | NC_000913 | 4,168,215 | 0 | A | T | 37.7% | 308.0 / 283.3 | 215 | intergenic (+15/‑157) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| * | NC_000913 | 4,168,472 | 0 | G | A | 33.6% | 181.2 / 155.4 | 146 | intergenic (+25/‑169) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 4,168,476 | 0 | A | G | 32.6% | 194.8 / 140.3 | 139 | intergenic (+29/‑165) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 4,168,475 | 0 | G | T | 32.4% | 218.0 / 153.2 | 139 | intergenic (+28/‑166) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 1,466,276 | 0 | T | C | 23.1% | 119.3 / 16.4 | 55 | pseudogene (885/2518 nt) | ydbA | putative outer membrane protein, N‑terminal fragment |
| 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) | 11 (0.130) | 10/410 | 5.4 | NA | noncoding (33/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 381312 = | NA (NA) | noncoding (53/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 780918 | 95 (1.110) | 6 (0.080) | 4/392 | 7.6 | 6.8% | noncoding (76/76 nt) | lysW | tRNA‑Lys |
| ? | NC_000913 | 781809 = | 78 (0.990) | intergenic (+157/‑276) | lysQ/nadA | tRNA‑Lys/quinolinate synthase | |||||
| * | ? | NC_000913 | = 3339621 | 126 (1.470) | 4 (0.050) | 4/410 | 7.9 | 3.1% | coding (445/810 nt) | mlaF | intermembrane phospholipid transport system, ATP binding subunit MlaF |
| ? | NC_000913 | = 3339707 | 129 (1.570) | coding (359/810 nt) | mlaF | intermembrane phospholipid transport system, ATP binding subunit MlaF | |||||
| * | ? | NC_000913 | 1411899 = | 68 (0.790) | 3 (0.040) | 3/376 | 8.0 | 4.0% | coding (50/936 nt) | ttcA | tRNA cytosine(32) 2‑sulfurtransferase TtcA |
| ? | NC_000913 | = 1434958 | 83 (1.100) | pseudogene (51/51 nt) | ttcC | putative tRNA 2‑thiocytidine (s(2)C32) synthase | |||||
| * | ? | NC_000913 | = 1242594 | 101 (1.180) | 3 (0.040) | 3/392 | 8.2 | 3.1% | coding (487/915 nt) | ldcA | murein L,D‑carboxypeptidase |
| ? | NC_000913 | = 1242576 | 94 (1.200) | coding (505/915 nt) | ldcA | murein L,D‑carboxypeptidase | |||||
| * | ? | NC_000913 | = 3579387 | 118 (1.380) | 3 (0.040) | 3/408 | 8.4 | 2.6% | coding (259/696 nt) | yhhW | quercetin 2,3‑dioxygenase |
| ? | NC_000913 | = 3579470 | 109 (1.330) | coding (176/696 nt) | yhhW | quercetin 2,3‑dioxygenase | |||||
| * | ? | NC_000913 | 725740 = | 62 (0.720) | 3 (0.040) | 3/408 | 8.4 | 4.3% | coding (1297/2049 nt) | kdpB | K(+) transporting P‑type ATPase subunit KdpB |
| ? | NC_000913 | 726172 = | 75 (0.920) | coding (865/2049 nt) | kdpB | K(+) transporting P‑type ATPase subunit KdpB | |||||
| * | ? | NC_000913 | = 608010 | 97 (1.130) | 3 (0.040) | 3/404 | 8.4 | 3.2% | noncoding (4/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | 609360 = | 91 (1.120) | intergenic (+183/+99) | insL‑2/entD | IS186/IS421 transposase/phosphopantetheinyl transferase EntD | |||||
| * | ? | NC_000913 | 3141245 = | 109 (1.270) | 3 (0.040) | 3/420 | 8.6 | 2.7% | coding (42/495 nt) | hybD | putative hydrogenase 2 maturation protease |
| ? | NC_000913 | 3141267 = | 107 (1.270) | coding (20/495 nt) | hybD | putative hydrogenase 2 maturation protease | |||||
| * | ? | BN000925 | = 6981 | 285 (1.080) | 9 (0.040) | 9/408 | 15.9 | 3.2% | noncoding (1490/4949 nt) | transposon:Tn1 | repeat region |
| ? | BN000925 | = 7020 | 277 (1.100) | noncoding (1529/4949 nt) | transposon:Tn1 | repeat region | |||||