mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 87 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,037,496 | 0 | A | T | 49.0% | 56.2 / inf | 153 | intergenic (+161/‑23) | alaT/rrlA | tRNA‑Ala/23S ribosomal RNA |
| * | NC_000913 | 581,337 | 0 | G | A | 42.9% | 38.0 / 187.1 | 133 | L168L (CTG→CTA) ‡ | nohD | putative DNA‑packaging protein NohD |
| * | NC_000913 | 581,335 | 0 | C | A | 42.5% | 67.6 / 167.5 | 134 | L168M (CTG→ATG) ‡ | nohD | putative DNA‑packaging protein NohD |
| * | NC_000913 | 581,322 | 0 | C | T | 41.6% | 44.5 / 167.9 | 126 | A163A (GCC→GCT) | nohD | putative DNA‑packaging protein NohD |
| * | NC_000913 | 581,381 | 0 | A | G | 40.8% | 83.4 / 188.6 | 142 | intergenic (+2/‑153) | nohD/tfaD | putative DNA‑packaging protein NohD/putative tail fiber assembly protein TfaD |
| * | NC_000913 | 581,380 | 0 | C | G | 40.4% | 113.1 / 196.6 | 142 | intergenic (+1/‑154) | nohD/tfaD | putative DNA‑packaging protein NohD/putative tail fiber assembly protein TfaD |
| * | NC_000913 | 58,065 | 0 | C | A | 39.6% | 103.0 / 33.2 | 91 | P234P (CCC→CCA) | djlA | co‑chaperone protein DjlA |
| * | NC_000913 | 581,416 | 0 | A | G | 36.3% | 125.7 / 135.6 | 124 | intergenic (+37/‑118) | nohD/tfaD | putative DNA‑packaging protein NohD/putative tail fiber assembly protein TfaD |
| * | NC_000913 | 581,388 | 0 | G | A | 35.5% | 116.3 / 137.7 | 126 | intergenic (+9/‑146) | nohD/tfaD | putative DNA‑packaging protein NohD/putative tail fiber assembly protein TfaD |
| * | NC_000913 | 581,398 | 0 | C | G | 35.5% | 151.0 / 151.3 | 125 | intergenic (+19/‑136) | nohD/tfaD | putative DNA‑packaging protein NohD/putative tail fiber assembly protein TfaD |
| * | NC_000913 | 2,477,265 | 0 | A | C | 34.9% | 134.3 / 31.9 | 83 | L122* (TTA→TGA) | dsdC | DNA‑binding transcriptional dual regulator DsdC |
| * | NC_000913 | 581,392 | 0 | T | C | 34.9% | 141.4 / 135.1 | 126 | intergenic (+13/‑142) | nohD/tfaD | putative DNA‑packaging protein NohD/putative tail fiber assembly protein TfaD |
| * | NC_000913 | 581,412 | 0 | G | T | 34.9% | 153.0 / 125.1 | 126 | intergenic (+33/‑122) | nohD/tfaD | putative DNA‑packaging protein NohD/putative tail fiber assembly protein TfaD |
| * | NC_000913 | 581,413 | 0 | C | T | 34.9% | 143.7 / 136.7 | 126 | intergenic (+34/‑121) | nohD/tfaD | putative DNA‑packaging protein NohD/putative tail fiber assembly protein TfaD |
| * | NC_000913 | 581,397 | 0 | T | C | 34.7% | 148.6 / 133.1 | 124 | intergenic (+18/‑137) | nohD/tfaD | putative DNA‑packaging protein NohD/putative tail fiber assembly protein TfaD |
| * | NC_000913 | 581,404 | 0 | C | G | 34.6% | 169.5 / 148.1 | 127 | intergenic (+25/‑130) | nohD/tfaD | putative DNA‑packaging protein NohD/putative tail fiber assembly protein TfaD |
| * | NC_000913 | 581,407 | 0 | G | T | 34.6% | 150.4 / 128.2 | 127 | intergenic (+28/‑127) | nohD/tfaD | putative DNA‑packaging protein NohD/putative tail fiber assembly protein TfaD |
| * | NC_000913 | 581,410 | 0 | T | A | 34.6% | 193.4 / 178.2 | 127 | intergenic (+31/‑124) | nohD/tfaD | putative DNA‑packaging protein NohD/putative tail fiber assembly protein TfaD |
| * | NC_000913 | 581,428 | 0 | G | T | 34.6% | 154.8 / 125.6 | 128 | intergenic (+49/‑106) | nohD/tfaD | putative DNA‑packaging protein NohD/putative tail fiber assembly protein TfaD |
| * | NC_000913 | 581,394 | 0 | T | C | 34.4% | 151.4 / 125.0 | 125 | intergenic (+15/‑140) | nohD/tfaD | putative DNA‑packaging protein NohD/putative tail fiber assembly protein TfaD |
| Marginal new junction evidence (lowest skew 10 of 21 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1301462 | 99 (0.980) | 26 (0.260) | 24/596 | 3.4 | 20.9% | coding (281/1632 nt) | oppA | oligopeptide ABC transporter periplasmic binding protein |
| ? | NC_000913 | 1301470 = | 98 (0.970) | coding (289/1632 nt) | oppA | oligopeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | 4542682 = | 136 (1.340) | 28 (0.290) | 22/580 | 3.6 | 18.4% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 117 (1.190) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 4542690 | 142 (1.400) | 29 (0.300) | 21/580 | 3.8 | 18.6% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 116 (1.180) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 4606166 | 99 (0.980) | 11 (0.150) | 10/420 | 4.9 | 15.3% | intergenic (‑1/+34) | leuV/leuP | tRNA‑Leu/tRNA‑Leu |
| ? | NC_000913 | 4606403 = | 52 (0.730) | intergenic (‑2/+266) | leuQ/rsmC | tRNA‑Leu/16S rRNA m(2)G1207 methyltransferase | |||||
| * | ? | NC_000913 | 2270378 = | 121 (1.200) | 15 (0.150) | 14/598 | 5.6 | 11.0% | coding (400/567 nt) | mepS | peptidoglycan endopeptidase/peptidoglycan L,D‑carboxypeptidase |
| ? | NC_000913 | = 2290113 | NA (NA) | noncoding (1/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 696741 | 78 (0.770) | 8 (0.110) | 7/442 | 6.3 | 12.4% | intergenic (‑1/+15) | metU/glnW | tRNA‑Met/tRNA‑Gln |
| ? | NC_000913 | 697135 = | 55 (0.740) | intergenic (‑2/+378) | metT/asnB | tRNA‑Met/asparagine synthetase B | |||||
| * | ? | NC_000913 | 3486177 = | 71 (0.700) | 10 (0.100) | 10/594 | 6.8 | 12.2% | coding (58/633 nt) | crp | DNA‑binding transcriptional dual regulator CRP |
| ? | NC_000913 | = 3486182 | 74 (0.740) | coding (63/633 nt) | crp | DNA‑binding transcriptional dual regulator CRP | |||||
| * | ? | NC_000913 | = 2270381 | 118 (1.170) | 14 (0.140) | 10/598 | 6.8 | 10.6% | coding (403/567 nt) | mepS | peptidoglycan endopeptidase/peptidoglycan L,D‑carboxypeptidase |
| ? | NC_000913 | 2288919 = | NA (NA) | noncoding (1195/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 1096961 = | 83 (0.820) | 7 (0.090) | 5/438 | 7.2 | 11.1% | intergenic (+132/+604) | ycdU/serX | uncharacterized protein YcdU/tRNA‑Ser |
| ? | NC_000913 | = 1097503 | 51 (0.690) | intergenic (+674/+62) | ycdU/serX | uncharacterized protein YcdU/tRNA‑Ser | |||||
| * | ? | NC_000913 | 381425 = | NA (NA) | 9 (0.090) | 8/598 | 7.6 | NA | noncoding (166/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 382590 | NA (NA) | noncoding (1331/1331 nt) | IS2 | repeat region | |||||