mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.26.1
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence... | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | change | freq | score | reads | annotation | genes | product | ||
| * | NC_000913 | 4,520,504 | 1 | .→T | 10.6% | 17.3 ‑1.0 ‑0.0 | 47 | intergenic (‑180/+167) | yjhU/yjhF | putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter |
| * | NC_000913 | 3,608,682 | 0 | T→C | 34.2% | 13.5 ‑7.9 0.0 | 43 | intergenic (+33/+69) | zntA/tusA | zinc, cobalt and lead efflux system/mnm(5)‑s(2)U34‑tRNA 2‑thiolation sulfurtransferase |
| * | NC_000913 | 4,520,500 | 0 | A→. | 10.4% | 11.5 ‑1.1 ‑0.1 | 48 | intergenic (‑176/+171) | yjhU/yjhF | putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter |
| * | NC_000913 | 290,834 | 0 | C→A | 100.0% | 0.8 | 1 | E107* (GAA→TAA) | insB1 | IS1 transposase B |
| * | NC_000913 | 574,791 | 0 | C→T | 100.0% | 0.8 | 1 | L321L (CTG→CTA) | insH1 | IS5 transposase and trans‑activator |
| * | NC_000913 | 1,651,031 | 0 | T→G | 100.0% | 0.6 | 4 | pseudogene (187/693 nt) | insD1 | IS2 transposase TnpB;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| * | NC_000913 | 2,289,915 | 0 | A→C | 100.0% | 0.6 | 1 | F56C (TTT→TGT) | insH1 | IS5 transposase and trans‑activator |
| * | NC_000913 | 608,205 | 0 | G→C | 100.0% | 0.4 | 1 | G47G (GGG→GGC) | insL1 | IS186 transposase |
| * | NC_000913 | 2,289,922 | 0 | C→T | 100.0% | 0.1 | 2 | E54K (GAG→AAG) | insH1 | IS5 transposase and trans‑activator |
| * | NC_000913 | 2,726,666 | 0 | A→C | 100.0% | ‑0.1 | 1 | noncoding (2519/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| * | NC_000913 | 2,726,678 | 0 | G→T | 100.0% | ‑0.1 | 1 | noncoding (2507/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| * | NC_000913 | 2,726,681 | 0 | A→C | 100.0% | ‑0.1 | 1 | noncoding (2504/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| * | NC_000913 | 2,726,688 | 0 | T→C | 100.0% | ‑0.1 | 1 | noncoding (2497/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| * | NC_000913 | 2,726,621 | 0 | T→C | 100.0% | ‑0.2 | 1 | noncoding (2564/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| * | NC_000913 | 2,726,630 | 0 | A→C | 100.0% | ‑0.2 | 1 | noncoding (2555/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| * | NC_000913 | 2,726,639 | 0 | A→C | 100.0% | ‑0.2 | 1 | noncoding (2546/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| * | NC_000913 | 2,726,645 | 0 | G→C | 100.0% | ‑0.2 | 1 | noncoding (2540/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| * | NC_000913 | 2,726,648 | 0 | A→C | 100.0% | ‑0.2 | 1 | noncoding (2537/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| * | NC_000913 | 2,726,657 | 0 | A→C | 100.0% | ‑0.2 | 1 | noncoding (2528/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| * | NC_000913 | 2,726,665 | 0 | G→C | 100.0% | ‑0.2 | 1 | noncoding (2520/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| * | NC_000913 | 2,726,668 | 0 | G→C | 100.0% | ‑0.2 | 1 | noncoding (2517/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| * | NC_000913 | 2,726,673 | 0 | G→T | 100.0% | ‑0.2 | 1 | noncoding (2512/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| * | NC_000913 | 2,726,675 | 0 | G→T | 100.0% | ‑0.2 | 1 | noncoding (2510/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| * | NC_000913 | 2,726,679 | 0 | A→C | 100.0% | ‑0.2 | 1 | noncoding (2506/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| Marginal mixed read alignment evidence... | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | change | freq | score | reads | annotation | genes | product | ||
| * | NC_000913 | 3,757,945 | 0 | T→G | 10.2% | 10.4 ‑0.4 ‑0.1 | 59 | intergenic (‑118/+72) | yiaY/selB | L‑threonine dehydrogenase/selenocysteinyl‑tRNA‑specific translation factor |
| Marginal new junction evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 54194 = | 56 (1.120) | 3 (0.060) | 3/404 | 8.8 | 5.4% | coding (509/1287 nt) | surA | peptidyl‑prolyl cis‑trans isomerase (PPIase) |
| ? | NC_000913 | 54266 = | 51 (1.050) | coding (437/1287 nt) | surA | peptidyl‑prolyl cis‑trans isomerase (PPIase) | |||||
| * | ? | NC_000913 | 547503 = | 42 (0.840) | 3 (0.060) | 3/402 | 8.8 | 6.7% | coding (824/1668 nt) | fdrA | putative NAD(P)‑binding acyl‑CoA synthetase |
| ? | NC_000913 | 547628 = | 43 (0.890) | coding (949/1668 nt) | fdrA | putative NAD(P)‑binding acyl‑CoA synthetase | |||||
| * | ? | NC_000913 | 3154233 = | 54 (1.080) | 3 (0.060) | 3/398 | 8.7 | 5.5% | intergenic (+11/+29) | yghB/yqhC | general envelope maintenance protein; DedA family inner membrane protein; putative multidrug efflux transporter/transcriptional activator of yqhD |
| ? | NC_000913 | 3154259 = | 52 (1.090) | intergenic (+37/+3) | yghB/yqhC | general envelope maintenance protein; DedA family inner membrane protein; putative multidrug efflux transporter/transcriptional activator of yqhD | |||||
| * | ? | NC_000913 | = 3442135 | 49 (0.980) | 3 (0.060) | 3/400 | 8.8 | 6.1% | coding (337/357 nt) | rpsM | 30S ribosomal subunit protein S13 |
| ? | NC_000913 | = 3442202 | 46 (0.960) | coding (270/357 nt) | rpsM | 30S ribosomal subunit protein S13 | |||||
| * | ? | NC_000913 | = 4542690 | 42 (0.840) | 3 (0.060) | 3/400 | 8.8 | 6.7% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4542986 | 43 (0.900) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||