mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 240 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,208,132 | 0 | G | A | 79.4% | 217.9 / 67.7 | 128 | intergenic (‑600/‑15) | purH/rrsE | bifunctional AICAR transformylase/IMP cyclohydrolase/16S ribosomal RNA |
| * | NC_000913 | 1,634,404 | 0 | A | G | 60.0% | ‑3.2 / 47.6 | 45 | I161T (ATC→ACC) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,388 | 0 | T | G | 57.5% | ‑3.7 / 48.4 | 40 | A166A (GCA→GCC) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 580,115 | 0 | C | T | 56.5% | 137.6 / inf | 246 | intergenic (+29/+136) | ybcW/ylcI | uncharacterized protein YbcW/DUF3950 domain‑containing protein YlcI |
| * | NC_000913 | 580,020 | 0 | G | A | 54.9% | 96.7 / inf | 276 | R47R (AGG→AGA) | ybcW | uncharacterized protein YbcW |
| * | NC_000913 | 580,119 | 0 | A | G | 54.8% | 86.2 / inf | 248 | intergenic (+33/+132) | ybcW/ylcI | uncharacterized protein YbcW/DUF3950 domain‑containing protein YlcI |
| * | NC_000913 | 580,120 | 0 | C | T | 54.6% | 91.2 / inf | 249 | intergenic (+34/+131) | ybcW/ylcI | uncharacterized protein YbcW/DUF3950 domain‑containing protein YlcI |
| * | NC_000913 | 579,811 | 0 | C | T | 54.0% | 72.7 / inf | 311 | intergenic (‑217/‑69) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| * | NC_000913 | 1,634,482 | 0 | T | C | 54.0% | 23.3 / 173.7 | 126 | N135S (AAC→AGC) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,484 | 0 | G | T | 54.0% | 24.0 / 189.1 | 126 | N134K (AAC→AAA) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 581,185 | 0 | C | T | 52.8% | 10.0 / 213.6 | 144 | L118L (CTG→TTG) | nohD | putative DNA‑packaging protein NohD |
| * | NC_000913 | 579,457 | 0 | A | G | 51.9% | 52.3 / inf | 342 | I46I (ATT→ATC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 578,811 | 0 | T | G | 51.7% | 53.7 / inf | 230 | Q28P (CAG→CCG) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 1,634,382 | 0 | T | C | 51.4% | 5.7 / 50.0 | 36 | K168K (AAA→AAG) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 581,133 | 0 | A | G | 51.1% | 61.1 / 218.9 | 140 | K100K (AAA→AAG) | nohD | putative DNA‑packaging protein NohD |
| * | NC_000913 | 581,227 | 0 | A | C | 51.1% | ‑5.9 / 203.9 | 139 | I132L (ATC→CTC) | nohD | putative DNA‑packaging protein NohD |
| * | NC_000913 | 1,634,569 | 0 | A | T | 51.1% | 69.7 / inf | 187 | F106Y (TTT→TAT) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 578,809 | 0 | T | C | 50.4% | 0.2 / inf | 232 | T29A (ACA→GCA) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 581,042 | 0 | T | G | 50.3% | 100.9 / 237.2 | 155 | L70R (CTG→CGG) | nohD | putative DNA‑packaging protein NohD |
| * | NC_000913 | 579,651 | 0 | C | T | 50.3% | ‑2.2 / inf | 352 | intergenic (‑57/‑229) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| Marginal new junction evidence (lowest skew 10 of 52 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1399593 | 109 (1.070) | 31 (0.300) | 25/596 | 3.3 | 22.1% | intergenic (‑67/+128) | fnr/ogt | DNA‑binding transcriptional dual regulator FNR/methylated‑DNA‑‑[protein]‑cysteine S‑methyltransferase |
| ? | NC_000913 | = 2290113 | NA (NA) | noncoding (1/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 1034135 | 89 (0.870) | 26 (0.250) | 24/598 | 3.4 | 22.6% | coding (882/1794 nt) | hyaB | hydrogenase 1 large subunit |
| ? | NC_000913 | = 1470516 | NA (NA) | noncoding (1221/1221 nt) | IS30 | repeat region | |||||
| * | ? | NC_000913 | = 566774 | 110 (1.080) | 58 (0.570) | 19/594 | 4.4 | 34.0% | pseudogene (91/93 nt) | renD | protein RenD |
| ? | NC_000913 | 568036 = | 116 (1.140) | pseudogene (2/213 nt) | renD | protein RenD | |||||
| * | ? | NC_000913 | = 4606166 | 89 (0.870) | 12 (0.170) | 11/420 | 4.6 | 16.6% | intergenic (‑1/+34) | leuV/leuP | tRNA‑Leu/tRNA‑Leu |
| ? | NC_000913 | 4606403 = | 58 (0.810) | intergenic (‑2/+266) | leuQ/rsmC | tRNA‑Leu/16S rRNA m(2)G1207 methyltransferase | |||||
| * | ? | NC_000913 | 2068941 = | NA (NA) | 22 (0.220) | 18/598 | 4.6 | 16.9% | noncoding (1331/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 2319850 | 108 (1.060) | coding (27/2850 nt) | rcsC | histidine kinase RcsC | |||||
| * | ? | NC_000913 | 1063705 = | 96 (0.940) | 25 (0.240) | 15/598 | 5.4 | 20.7% | coding (71/921 nt) | cbpA | curved DNA‑binding protein |
| ? | NC_000913 | = 1469240 | NA (NA) | noncoding (1/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 280111 | NA (NA) | 15 (0.150) | 15/598 | 5.4 | 14.4% | noncoding (181/181 nt) | IS30 | repeat region |
| ? | NC_000913 | = 1034135 | 89 (0.870) | coding (882/1794 nt) | hyaB | hydrogenase 1 large subunit | |||||
| * | ? | NC_000913 | = 2290113 | NA (NA) | 15 (0.150) | 14/598 | 5.6 | 16.5% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 4603969 = | 76 (0.740) | coding (493/726 nt) | yjjQ | DNA‑binding transcriptional repressor YjjQ | |||||
| * | ? | NC_000913 | = 271761 | NA (NA) | 14 (0.140) | 14/596 | 5.6 | 13.6% | noncoding (1221/1221 nt) | IS30 | repeat region |
| ? | NC_000913 | = 1034135 | 89 (0.870) | coding (882/1794 nt) | hyaB | hydrogenase 1 large subunit | |||||
| * | ? | NC_000913 | = 2653419 | 87 (0.850) | 12 (0.130) | 12/548 | 5.7 | 12.1% | noncoding (37/100 nt) | timR | putative small regulatory RNA TimR |
| ? | NC_000913 | 2653746 = | 95 (1.010) | intergenic (‑291/‑109) | timR/ryfA | putative small regulatory RNA TimR/small regulatory RNA RyfA | |||||