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 | 4,118,828 | 0 | T | G | 25.0% | 38.5 / 14.7 | 24 | intergenic (+68/+17) | zapB/rraA | FtsZ stabilizer, septal ring assembly factor, cell division stimulator/ribonuclease E (RNase E) inhibitor protein |
| * | NC_000913 | 4,118,829 | 0 | T | C | 25.0% | 38.2 / 10.6 | 24 | intergenic (+69/+16) | zapB/rraA | FtsZ stabilizer, septal ring assembly factor, cell division stimulator/ribonuclease E (RNase E) inhibitor protein |
| * | NC_000913 | 4,118,831 | 0 | C | A | 25.0% | 38.6 / 13.0 | 24 | intergenic (+71/+14) | zapB/rraA | FtsZ stabilizer, septal ring assembly factor, cell division stimulator/ribonuclease E (RNase E) inhibitor protein |
| * | NC_000913 | 1,314,682 | 0 | A | T | 22.2% | 51.9 / 11.6 | 27 | intergenic (+24/+36) | ompW/yciE | outer membrane protein W/putative rubrerythrin/ferritin‑like metal‑binding protein |
| * | NC_000913 | 1,314,683 | 0 | T | A | 22.2% | 50.7 / 11.6 | 27 | intergenic (+25/+35) | ompW/yciE | outer membrane protein W/putative rubrerythrin/ferritin‑like metal‑binding protein |
| * | NC_000913 | 1,314,684 | 0 | A | T | 22.2% | 50.6 / 11.9 | 27 | intergenic (+26/+34) | ompW/yciE | outer membrane protein W/putative rubrerythrin/ferritin‑like metal‑binding protein |
| * | NC_000913 | 3,530,671 | 0 | A | C | 22.2% | 47.8 / 14.3 | 27 | intergenic (+19/+44) | hslO/yhgE | heat shock protein Hsp33/DUF4153 family putative inner membrane protein |
| * | NC_000913 | 3,530,672 | 0 | G | C | 22.2% | 51.9 / 14.6 | 27 | intergenic (+20/+43) | hslO/yhgE | heat shock protein Hsp33/DUF4153 family putative inner membrane protein |
| * | NC_000913 | 3,530,673 | 0 | G | C | 22.2% | 58.1 / 14.2 | 27 | intergenic (+21/+42) | hslO/yhgE | heat shock protein Hsp33/DUF4153 family putative inner membrane protein |
| * | NC_000913 | 3,530,674 | 0 | G | T | 22.2% | 55.5 / 11.0 | 27 | intergenic (+22/+41) | hslO/yhgE | heat shock protein Hsp33/DUF4153 family putative inner membrane protein |
| * | NC_000913 | 207,486 | 0 | G | T | 21.4% | 64.2 / 11.6 | 28 | M787I (ATG→ATT) | dnaE | DNA polymerase III alpha subunit |
| * | NC_000913 | 3,809,681 | 0 | T | A | 21.4% | 50.7 / 11.4 | 28 | V381D (GTT→GAT) ‡ | waaA | 3‑deoxy‑D‑manno‑octulosonic‑acid transferase (KDO transferase) |
| * | NC_000913 | 3,809,682 | 0 | T | A | 21.4% | 55.2 / 10.4 | 28 | V381V (GTT→GTA) ‡ | waaA | 3‑deoxy‑D‑manno‑octulosonic‑acid transferase (KDO transferase) |
| * | NC_000913 | 4,409,410 | 1 | . | A | 20.8% | 53.5 / 18.8 | 24 | coding (136/732 nt) | rlmB | 23S rRNA mG2251 2'‑O‑ribose methyltransferase, SAM‑dependent |
| * | NC_000913 | 207,483 | 0 | A | C | 20.7% | 56.2 / 12.6 | 29 | V786V (GTA→GTC) | dnaE | DNA polymerase III alpha subunit |
| Marginal new junction evidence (lowest skew 10 of 56 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 59280 = | 56 (1.610) | 9 (0.300) | 9/220 | 2.3 | 16.0% | intergenic (+1/+407) | yabP/rluA | pseudogene, pentapeptide repeats‑containing/dual specificity 23S rRNA pseudouridine(746), tRNA pseudouridine(32) synthase, SAM‑dependent |
| ? | NC_000913 | 59320 = | 46 (1.530) | intergenic (+41/+367) | yabP/rluA | pseudogene, pentapeptide repeats‑containing/dual specificity 23S rRNA pseudouridine(746), tRNA pseudouridine(32) synthase, SAM‑dependent | |||||
| * | ? | NC_000913 | = 4589108 | 39 (1.120) | 6 (0.180) | 6/238 | 3.3 | 14.5% | intergenic (‑29/+21) | yjiX/yjiY | DUF466 family protein/putative transporter |
| ? | NC_000913 | = 4589112 | 34 (1.040) | intergenic (‑33/+17) | yjiX/yjiY | DUF466 family protein/putative transporter | |||||
| * | ? | NC_000913 | = 3986614 | 55 (1.580) | 6 (0.190) | 6/232 | 3.3 | 10.6% | noncoding (183/207 nt) | glmZ | sRNA antisense activator of glmS mRNA, Hfq‑dependent |
| ? | NC_000913 | = 3986622 | 51 (1.600) | noncoding (191/207 nt) | glmZ | sRNA antisense activator of glmS mRNA, Hfq‑dependent | |||||
| * | ? | NC_000913 | = 2304789 | 16 (0.460) | 6 (0.230) +33 bp |
4/188 | 3.3 | 33.7% | noncoding (373/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences |
| ? | NC_000913 | = 2305065 | NA (NA) | noncoding (649/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | |||||
| * | ? | NC_000913 | 3960717 = | 42 (1.210) | 6 (0.180) | 6/240 | 3.4 | 14.0% | coding (41/2022 nt) | rep | DNA helicase and single‑stranded DNA‑dependent ATPase |
| ? | NC_000913 | 3960760 = | 34 (1.030) | coding (84/2022 nt) | rep | DNA helicase and single‑stranded DNA‑dependent ATPase | |||||
| * | ? | NC_000913 | = 228224 | NA (NA) | 6 (0.180) | 6/242 | 3.4 | NA | noncoding (2466/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 228241 | NA (NA) | noncoding (2483/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 1670967 | 24 (0.690) | 5 (0.160) | 5/228 | 3.6 | 18.0% | intergenic (+15/‑409) | ynfM/asr | putative arabinose efflux transporter/acid shock‑inducible periplasmic protein |
| ? | NC_000913 | = 1670981 | 24 (0.770) | intergenic (+29/‑395) | ynfM/asr | putative arabinose efflux transporter/acid shock‑inducible periplasmic protein | |||||
| * | ? | NC_000913 | 2940113 = | 30 (0.860) | 5 (0.150) | 5/240 | 3.7 | 15.8% | intergenic (+14/+30) | fucR/rlmM | l‑fucose operon activator/23S rRNA C2498 2'‑O‑ribose methyltransferase, SAM‑dependent |
| ? | NC_000913 | 2940137 = | 25 (0.760) | intergenic (+38/+6) | fucR/rlmM | l‑fucose operon activator/23S rRNA C2498 2'‑O‑ribose methyltransferase, SAM‑dependent | |||||
| * | ? | NC_000913 | 427756 = | 25 (0.720) | 6 (0.180) | 5/240 | 3.7 | 20.8% | coding (110/1848 nt) | secD | SecYEG protein translocase auxillary subunit |
| ? | NC_000913 | 427787 = | 22 (0.670) | coding (141/1848 nt) | secD | SecYEG protein translocase auxillary subunit | |||||
| * | ? | NC_000913 | 4058706 = | 35 (1.000) | 6 (0.180) | 5/248 | 3.8 | 15.3% | coding (300/1824 nt) | typA | GTP‑binding protein |
| ? | NC_000913 | 4058736 = | 32 (0.940) | coding (330/1824 nt) | typA | GTP‑binding protein | |||||