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 | 4,076,135 | 0 | G | T | 74.4% | 59.1 / 34.7 | 39 | A195S (GCG→TCG) | yihX | alpha‑D‑glucose‑1‑phosphate phosphatase |
| * | NC_000913 | 4,213,051 | 0 | A | C | 50.0% | ‑5.4 / 15.9 | 10 | noncoding (12/120 nt) | rrfE | 5S ribosomal RNA |
| * | NC_000913 | 3,926,366 | 0 | A | C | 32.6% | 73.8 / 14.6 | 43 | G30G (GGT→GGG) | mioC | flavoprotein MioC |
| * | NC_000913 | 1,068,173 | 0 | T | G | 32.5% | 61.5 / 20.5 | 40 | G31G (GGT→GGG) | ymdF | conserved protein YmdF |
| * | NC_000913 | 4,604,344 | 0 | C | T | 31.2% | 43.5 / 10.2 | 32 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 2,326,450 | 0 | T | G | 30.4% | 33.7 / 12.5 | 23 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 1,428,721 | 0 | G | A | 29.3% | 73.5 / 28.2 | 41 | S2S (AGC→AGT) | insH‑5 | Rac prophage; IS5 transposase and trans‑activator |
| * | NC_000913 | 1,428,700 | 0 | A | G | 28.6% | 85.5 / 35.2 | 49 | D9D (GAT→GAC) | insH‑5 | Rac prophage; IS5 transposase and trans‑activator |
| * | NC_000913 | 1,428,712 | 0 | G | A | 23.8% | 89.8 / 21.8 | 42 | L5L (CTC→CTT) | insH‑5 | Rac prophage; IS5 transposase and trans‑activator |
| * | NC_000913 | 3,478,240 | 1 | . | C | 23.5% | 29.7 / 13.9 | 17 | coding (258/591 nt) | slyD | FKBP‑type peptidyl‑prolyl cis‑trans isomerase SlyD |
| * | NC_000913 | 1,428,686 | 0 | G | C | 22.4% | 163.1 / 41.0 | 58 | T14S (ACT→AGT) | insH‑5 | Rac prophage; IS5 transposase and trans‑activator |
| Marginal new junction evidence (lowest skew 10 of 17 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 3588424 = | 35 (1.040) | 7 (0.230) | 7/252 | 2.0 | 19.7% | coding (757/1071 nt) | ugpC | sn‑glycerol 3‑phosphate ABC transporter ATP binding subunit |
| ? | NC_000913 | 3589222 = | 25 (0.810) | coding (806/846 nt) | ugpE | sn‑glycerol 3‑phosphate ABC transporter membrane subunit UgpE | |||||
| * | ? | NC_000913 | = 4542690 | 36 (1.070) | 6 (0.190) | 6/258 | 2.3 | 14.2% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 39 (1.240) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 2518054 = | 36 (1.070) | 5 (0.170) | 5/248 | 2.5 | 15.1% | noncoding (63/76 nt) | alaX | tRNA‑Ala |
| ? | NC_000913 | 2521236 = | 24 (0.790) | noncoding (64/76 nt) | valY | tRNA‑Val | |||||
| * | ? | NC_000913 | 3484544 = | 32 (0.950) | 4 (0.130) | 4/256 | 2.9 | 11.5% | coding (55/870 nt) | prkB | putative phosphoribulokinase |
| ? | NC_000913 | = 3484540 | 32 (1.030) | coding (51/870 nt) | prkB | putative phosphoribulokinase | |||||
| * | ? | NC_000913 | 2899588 = | 52 (1.550) | 4 (0.130) | 4/256 | 2.9 | 8.2% | coding (686/786 nt) | ygcW | putative deoxygluconate dehydrogenase |
| ? | NC_000913 | 2899697 = | 41 (1.310) | coding (577/786 nt) | ygcW | putative deoxygluconate dehydrogenase | |||||
| * | ? | NC_000913 | 443876 = | 39 (1.160) | 4 (0.130) | 4/256 | 2.9 | 9.0% | coding (640/912 nt) | panE | 2‑dehydropantoate 2‑reductase |
| ? | NC_000913 | 444151 = | 45 (1.440) | coding (365/912 nt) | panE | 2‑dehydropantoate 2‑reductase | |||||
| * | ? | NC_000913 | = 374963 | NA (NA) | 4 (0.120) | 4/268 | 3.0 | NA | noncoding (33/34 nt) | other | REP31a |
| ? | NC_000913 | = 377387 | NA (NA) | intergenic (+76/+148) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 899730 | NA (NA) | 3 (0.100) | 3/238 | 3.1 | NA | noncoding (34/34 nt) | other | REP82a |
| ? | NC_000913 | = 900747 | NA (NA) | intergenic (‑172/+119) | artJ/artM | L‑arginine ABC transporter periplasmic binding protein/L‑arginine ABC transporter membrane subunit ArtM | |||||
| * | ? | NC_000913 | 2704097 = | 30 (0.890) | 3 (0.100) | 3/250 | 3.2 | 9.1% | intergenic (‑34/+238) | rnc/lepB | RNase III/signal peptidase I |
| ? | NC_000913 | 2704191 = | 33 (1.080) | intergenic (‑128/+144) | rnc/lepB | RNase III/signal peptidase I | |||||
| * | ? | NC_000913 | 357482 = | NA (NA) | 3 (0.100) | 3/244 | 3.2 | NA | intergenic (+28/+309) | codA/cynR | cytosine/isoguanine deaminase/DNA‑binding transcriptional dual regulator CynR |
| ? | NC_000913 | 431068 = | NA (NA) | intergenic (+116/+61) | yajD/tsx | HNH nuclease family protein/nucleoside‑specific channel‑forming protein Tsx | |||||