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 | ||
| * | NZ_CP009273 | 3,291,063 | 0 | A | C | 62.5% | 3.6 / 12.4 | 16 | G145G (GGT→GGG) | yraQ | permease |
| * | NZ_CP009273 | 883,470 | 0 | T | G | 61.5% | 5.0 / 10.1 | 13 | intergenic (+55/+120) | rcdA/ybjL | DNA‑binding transcriptional regulator RcdA/aspartate:alanine antiporter |
| * | NZ_CP009273 | 4,058,958 | 0 | G | A | 60.9% | 0.5 / 20.6 | 23 | L57L (CTG→TTG) | yihO | MFS transporter |
| * | NZ_CP009273 | 3,024,082 | 0 | A | C | 58.8% | 9.1 / 16.0 | 17 | V70G (GTT→GGT) | ygfT | formate‑dependent uric acid utilization protein YgfT |
| * | NZ_CP009273 | 2,955,854 | 0 | T | G | 57.9% | 15.2 / 17.5 | 19 | S90S (TCA→TCC) | ppdC | prepilin‑type N‑terminal cleavage/methylation domain‑containing protein |
| * | NZ_CP009273 | 1,429,963 | 0 | T | A | 57.1% | 6.0 / 16.4 | 14 | intergenic (‑87/+54) | uspF/ompN | universal stress protein UspF/porin OmpN |
| * | NZ_CP009273 | 1,429,984 | 0 | G | A | 56.2% | ‑2.1 / 16.8 | 16 | intergenic (‑108/+33) | uspF/ompN | universal stress protein UspF/porin OmpN |
| * | NZ_CP009273 | 2,738,448 | 0 | A | C | 53.8% | 7.4 / 13.7 | 13 | V84G (GTG→GGG) | trmD | tRNA (guanosine(37)‑N1)‑methyltransferase TrmD |
| * | NZ_CP009273 | 832,048 | 0 | T | G | 52.6% | 14.7 / 20.8 | 19 | V81G (GTC→GGC) | hcxB | hydroxycarboxylate dehydrogenase HcXB |
| * | NZ_CP009273 | 2,367,400 | 0 | A | C | 52.6% | 9.9 / 18.3 | 19 | G361G (GGT→GGG) | menE | o‑succinylbenzoate‑‑CoA ligase |
| * | NZ_CP009273 | 4,594,161 | 0 | C | T | 48.3% | 17.2 / 16.3 | 29 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 4,101,675 | 0 | G | T | 46.7% | 10.5 / 10.3 | 15 | N156K (AAC→AAA) | yiiQ | YiiQ family protein |
| * | NZ_CP009273 | 3,806,632 | 0 | C | T | 40.5% | 29.0 / 15.4 | 37 | S181L (TCG→TTG) | coaBC | bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate‑‑cysteine ligase CoaBC |
| * | NZ_CP009273 | 3,549,566 | 0 | T | C | 39.4% | 44.5 / 15.8 | 33 | S215G (AGT→GGT) | rtcA | RNA 3'‑terminal phosphate cyclase |
| * | NZ_CP009273 | 3,659,062 | 0 | C | A | 39.1% | 37.3 / 11.5 | 23 | A37S (GCG→TCG) | gadX | acid resistance transcriptional activator GadX |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 4398991 = | 38 (1.830) | 3 (0.180) | 3/136 | 1.6 | 10.3% | intergenic (+79/‑101) | rnr/rlmB | ribonuclease R/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB |
| ? | NZ_CP009273 | 4399052 = | 21 (1.240) | intergenic (+140/‑40) | rnr/rlmB | ribonuclease R/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||