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 | 4,296,060 | 0 | C | T | 35.7% | 45.7 / 39.9 | 42 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 1,388,285 | 0 | A | G | 21.4% | 78.6 / 18.3 | 42 | intergenic (+24/+20) | tyrR/tpx | aromatic amino acid biosynthesis and transport regulon transcriptional regulator; autorepressor; ATPase; phosphatase/lipid hydroperoxide peroxidase |
| * | NC_000913 | 1,388,283 | 0 | C | T | 20.4% | 91.3 / 18.6 | 44 | intergenic (+22/+22) | tyrR/tpx | aromatic amino acid biosynthesis and transport regulon transcriptional regulator; autorepressor; ATPase; phosphatase/lipid hydroperoxide peroxidase |
| * | NC_000913 | 1,388,284 | 0 | A | T | 20.4% | 88.3 / 20.1 | 44 | intergenic (+23/+21) | tyrR/tpx | aromatic amino acid biosynthesis and transport regulon transcriptional regulator; autorepressor; ATPase; phosphatase/lipid hydroperoxide peroxidase |
| Marginal new junction evidence (lowest skew 10 of 114 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 2118562 = | 20 (0.470) | 8 (0.200) | 8/228 | 3.3 | 28.1% | noncoding (97/186 nt) | REP144 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP144 (repetitive extragenic palindromic) element; contains 4 REP sequences |
| ? | NC_000913 | 2118594 = | 22 (0.540) | noncoding (129/186 nt) | REP144 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP144 (repetitive extragenic palindromic) element; contains 4 REP sequences | |||||
| * | ? | NC_000913 | = 3943635 | NA (NA) | 7 (0.170) | 7/228 | 3.6 | 15.7% | intergenic (+125/‑69) | gltU/rrlC | tRNA‑Glu/23S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 4037446 | 40 (0.930) | intergenic (+111/‑73) | alaT/rrlA | tRNA‑Ala/23S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | = 339911 | 38 (0.880) | 7 (0.170) | 7/228 | 3.6 | 16.5% | noncoding (155/358 nt) | REP23 (repetitive extragenic palindromic) element; contains 8 REP sequences | REP23 (repetitive extragenic palindromic) element; contains 8 REP sequences |
| ? | NC_000913 | = 339922 | 35 (0.860) | noncoding (166/358 nt) | REP23 (repetitive extragenic palindromic) element; contains 8 REP sequences | REP23 (repetitive extragenic palindromic) element; contains 8 REP sequences | |||||
| * | ? | NC_000913 | = 339836 | 22 (0.510) | 7 (0.170) | 7/228 | 3.6 | 20.4% | noncoding (80/358 nt) | REP23 (repetitive extragenic palindromic) element; contains 8 REP sequences | REP23 (repetitive extragenic palindromic) element; contains 8 REP sequences |
| ? | NC_000913 | = 339904 | 34 (0.840) | noncoding (148/358 nt) | REP23 (repetitive extragenic palindromic) element; contains 8 REP sequences | REP23 (repetitive extragenic palindromic) element; contains 8 REP sequences | |||||
| * | ? | NC_000913 | = 4219847 | 45 (1.050) | 6 (0.150) | 6/218 | 3.8 | 13.4% | coding (1252/1737 nt) | aceK | isocitrate dehydrogenase kinase/phosphatase |
| ? | NC_000913 | = 4219854 | 37 (0.960) | coding (1259/1737 nt) | aceK | isocitrate dehydrogenase kinase/phosphatase | |||||
| * | ? | NC_000913 | 781813 = | 38 (0.880) | 6 (0.150) | 6/220 | 3.8 | 13.1% | intergenic (+161/‑272) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A |
| ? | NC_000913 | 781840 = | 45 (1.150) | intergenic (+188/‑245) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A | |||||
| * | ? | NC_000913 | 3423376 = | 66 (1.540) | 10 (0.250) +TTGATGT |
6/228 | 3.9 | 16.1% | intergenic (+182/+47) | yhdZ/rrfF | putative amino acid ABC transporter ATPase/5S ribosomal RNA of rrnD operon |
| ? | NC_000913 | = 4213155 | 45 (1.050) | noncoding (116/120 nt) | rrfE | 5S ribosomal RNA of rrnE operon | |||||
| * | ? | NC_000913 | 3423376 = | 66 (1.540) | 10 (0.250) +TTGATGT |
6/228 | 3.9 | 23.3% | intergenic (+182/+47) | yhdZ/rrfF | putative amino acid ABC transporter ATPase/5S ribosomal RNA of rrnD operon |
| ? | NC_000913 | = 3946815 | 4 (0.090) | noncoding (116/120 nt) | rrfC | 5S ribosomal RNA of rrnC operon | |||||
| * | ? | NC_000913 | 3423376 = | 66 (1.540) | 10 (0.250) +TTGATGT |
6/228 | 3.9 | 13.9% | intergenic (+182/+47) | yhdZ/rrfF | putative amino acid ABC transporter ATPase/5S ribosomal RNA of rrnD operon |
| ? | NC_000913 | 3423672 = | NA (NA) | noncoding (116/120 nt) | rrfD | 5S ribosomal RNA of rrnD operon | |||||
| * | ? | NC_000913 | 2118466 = | NA (NA) | 6 (0.150) | 6/228 | 3.9 | 21.4% | noncoding (1/186 nt) | REP144 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP144 (repetitive extragenic palindromic) element; contains 4 REP sequences |
| ? | NC_000913 | 2118594 = | 22 (0.540) | noncoding (129/186 nt) | REP144 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP144 (repetitive extragenic palindromic) element; contains 4 REP sequences | |||||