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 255 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,015,279 | 0 | C | A | 78.2% | 143.3 / 44.9 | 78 | L134M (CTG→ATG) | fliG | flagellar motor switch protein FliG |
| * | NC_000913 | 1,757,450 | 0 | G | A | 75.2% | 278.6 / 93.0 | 137 | A10A (GCG→GCA) | lpp | murein lipoprotein |
| * | NC_000913 | 2,949,194 | 0 | C | T | 70.7% | 223.8 / 116.1 | 140 | intergenic (‑184/‑48) | amiC/argA | N‑acetylmuramoyl‑L‑alanine amidase C/N‑acetylglutamate synthase |
| * | NC_000913 | 3,217,993 | 0 | C | T | 68.8% | 117.0 / 72.3 | 80 | A362T (GCG→ACG) | aer | aerotaxis receptor |
| * | NC_000913 | 953,130 | 0 | C | T | 63.6% | 121.7 / 119.7 | 110 | R142H (CGT→CAT) | pflB | pyruvate formate‑lyase |
| * | NC_000913 | 1,634,724 | 0 | G | A | 62.5% | 0.5 / 172.6 | 160 | F54F (TTC→TTT) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,699 | 0 | A | C | 60.3% | ‑3.0 / 206.9 | 179 | S63A (TCA→GCA) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,676 | 0 | A | G | 60.0% | 6.5 / 252.5 | 191 | D70D (GAT→GAC) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,661 | 0 | C | G | 59.7% | 12.3 / 284.6 | 197 | T75T (ACG→ACC) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,578 | 0 | T | C | 58.8% | 18.3 / 275.1 | 201 | E103G (GAA→GGA) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,569 | 0 | A | T | 58.6% | 18.6 / inf | 198 | F106Y (TTT→TAT) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,571 | 0 | C | T | 58.6% | 10.7 / 258.8 | 198 | E105E (GAG→GAA) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,658 | 0 | A | G | 57.8% | 24.3 / 286.9 | 204 | V76V (GTT→GTC) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,597 | 0 | C | A | 57.8% | 27.8 / 290.0 | 207 | V97F (GTT→TTT) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,404 | 0 | A | G | 56.9% | ‑2.0 / 63.8 | 51 | I161T (ATC→ACC) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,484 | 0 | G | T | 55.1% | 15.8 / 181.1 | 127 | N134K (AAC→AAA) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 581,185 | 0 | C | T | 55.0% | 10.7 / 206.8 | 149 | L118L (CTG→TTG) | nohD | putative DNA‑packaging protein NohD |
| * | NC_000913 | 581,227 | 0 | A | C | 54.9% | 36.3 / 188.2 | 143 | I132L (ATC→CTC) | nohD | putative DNA‑packaging protein NohD |
| * | NC_000913 | 1,634,482 | 0 | T | C | 54.3% | 19.4 / 187.3 | 127 | N135S (AAC→AGC) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,769 | 0 | T | A | 52.7% | 64.8 / 258.7 | 129 | P39P (CCA→CCT) | tfaQ | putative tail fiber assembly protein TfaQ |
| Marginal new junction evidence (lowest skew 10 of 164 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 566774 | 113 (1.080) | 63 (0.610) | 25/594 | 3.5 | 36.7% | pseudogene (91/93 nt) | renD | protein RenD |
| ? | NC_000913 | 568036 = | 105 (1.010) | pseudogene (2/213 nt) | renD | protein RenD | |||||
| * | ? | NC_000913 | = 916029 | 121 (1.170) | 24 (0.230) | 22/594 | 4.0 | 16.6% | coding (19/696 nt) | aqpZ | water channel AqpZ |
| ? | NC_000913 | = 1470516 | NA (NA) | noncoding (1221/1221 nt) | IS30 | repeat region | |||||
| * | ? | NC_000913 | = 1034135 | 74 (0.710) | 23 (0.220) | 21/598 | 4.2 | 23.7% | coding (882/1794 nt) | hyaB | hydrogenase 1 large subunit |
| ? | NC_000913 | = 1470516 | NA (NA) | noncoding (1221/1221 nt) | IS30 | repeat region | |||||
| * | ? | NC_000913 | = 1470516 | NA (NA) | 23 (0.220) | 20/594 | 4.4 | 16.6% | noncoding (1221/1221 nt) | IS30 | repeat region |
| ? | NC_000913 | 4526595 = | 116 (1.120) | coding (294/783 nt) | sgcR | putative DNA‑binding transcriptional regulator SgcR | |||||
| * | ? | NC_000913 | = 1470516 | NA (NA) | 21 (0.200) | 20/594 | 4.4 | 16.3% | noncoding (1221/1221 nt) | IS30 | repeat region |
| ? | NC_000913 | = 1995730 | 108 (1.040) | coding (76/177 nt) | yecU | protein YecU | |||||
| * | ? | NC_000913 | = 4508679 | NA (NA) | 20 (0.190) | 19/598 | 4.6 | 14.5% | noncoding (1/1221 nt) | IS30 | repeat region |
| ? | NC_000913 | = 4526596 | 118 (1.130) | coding (293/783 nt) | sgcR | putative DNA‑binding transcriptional regulator SgcR | |||||
| * | ? | NC_000913 | = 1470516 | NA (NA) | 20 (0.190) | 19/594 | 4.6 | 18.7% | noncoding (1221/1221 nt) | IS30 | repeat region |
| ? | NC_000913 | 2896856 = | 87 (0.840) | coding (1015/1338 nt) | ygcS | putative transporter YgcS | |||||
| * | ? | NC_000913 | 1591976 = | 106 (1.020) | 19 (0.180) | 18/598 | 4.9 | 15.2% | coding (201/1323 nt) | hipA | serine/threonine‑protein kinase toxin HipA |
| ? | NC_000913 | = 1651548 | NA (NA) | noncoding (706/706 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 146735 | 108 (1.030) | 19 (0.180) | 18/598 | 4.9 | 15.0% | intergenic (‑41/‑233) | panD/rpnC | aspartate 1‑decarboxylase proenzyme/recombination‑promoting nuclease RpnC |
| ? | NC_000913 | 270541 = | NA (NA) | noncoding (1/1221 nt) | IS30 | repeat region | |||||
| * | ? | NC_000913 | = 946295 | 98 (0.940) | 20 (0.190) | 17/598 | 5.1 | 17.0% | coding (425/1149 nt) | ycaD | putative transporter YcaD |
| ? | NC_000913 | 4507459 = | NA (NA) | noncoding (1221/1221 nt) | IS30 | repeat region | |||||