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 | 31.9% | 63.7 / 36.8 | 47 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 1,344,033 | 0 | A | G | 24.0% | 41.0 / 10.9 | 25 | L105P (CTG→CCG) | yciT | global regulator of transcription; DeoR family |
| * | NC_000913 | 1,344,036 | 0 | G | C | 24.0% | 46.9 / 15.1 | 25 | T104S (ACT→AGT) | yciT | global regulator of transcription; DeoR family |
| * | NC_000913 | 1,344,039 | 0 | C | T | 24.0% | 41.9 / 10.7 | 25 | R103Q (CGG→CAG) | yciT | global regulator of transcription; DeoR family |
| * | NC_000913 | 2,462,881 | 0 | C | . | 22.2% | 62.7 / 17.3 | 27 | intergenic (+235/‑131) | fadL/yfdF | long‑chain fatty acid outer membrane transporter/uncharacterized protein |
| * | NC_000913 | 922,314 | 1 | . | C | 20.8% | 55.5 / 21.2 | 24 | intergenic (+21/+52) | macB/cspD | macrolide ABC transporter peremase/ATPase/inhibitor of DNA replication, cold shock protein homolog |
| * | NC_000913 | 420,945 | 0 | A | C | 20.5% | 81.1 / 18.6 | 39 | intergenic (+35/‑41) | brnQ/proY | branched‑chain amino acid transport system 2 carrier protein; LIV‑II transport system for Ile, Leu, and Val/proline‑specific permease |
| * | NC_000913 | 420,946 | 0 | T | A | 20.5% | 83.8 / 14.7 | 39 | intergenic (+36/‑40) | brnQ/proY | branched‑chain amino acid transport system 2 carrier protein; LIV‑II transport system for Ile, Leu, and Val/proline‑specific permease |
| * | NC_000913 | 420,941 | 0 | T | A | 20.0% | 82.9 / 14.4 | 40 | intergenic (+31/‑45) | brnQ/proY | branched‑chain amino acid transport system 2 carrier protein; LIV‑II transport system for Ile, Leu, and Val/proline‑specific permease |
| Marginal new junction evidence (lowest skew 10 of 67 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 3423554 | 58 (1.490) | 9 (0.230) | 7/254 | 3.6 | 13.5% | intergenic (‑12/+26) | rrfF/thrV | 5S ribosomal RNA of rrnD operon/tRNA‑Thr |
| ? | NC_000913 | 4171603 = | NA (NA) | intergenic (+59/‑34) | rrlB/rrfB | 23S ribosomal RNA of rrnB operon/5S ribosomal RNA of rrnB operon | |||||
| * | ? | NC_000913 | = 3423554 | 58 (1.490) | 9 (0.230) | 7/254 | 3.6 | 21.3% | intergenic (‑12/+26) | rrfF/thrV | 5S ribosomal RNA of rrnD operon/tRNA‑Thr |
| ? | NC_000913 | 4040483 = | 9 (0.230) | intergenic (+60/‑34) | rrlA/rrfA | 23S ribosomal RNA of rrnA operon/5S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | = 3423554 | 58 (1.490) | 9 (0.230) | 7/254 | 3.6 | 13.5% | intergenic (‑12/+26) | rrfF/thrV | 5S ribosomal RNA of rrnD operon/tRNA‑Thr |
| ? | NC_000913 | = 3423821 | NA (NA) | intergenic (‑34/+59) | rrfD/rrlD | 5S ribosomal RNA of rrnD operon/23S ribosomal RNA of rrnD operon | |||||
| * | ? | NC_000913 | 274620 = | NA (NA) | 9 (0.250) | 6/238 | 3.7 | NA | noncoding (530/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274663 = | NA (NA) | noncoding (487/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 4037399 = | NA (NA) | 8 (0.210) | 6/252 | 3.9 | 73.0% | intergenic (+64/‑120) | alaT/rrlA | tRNA‑Ala/23S ribosomal RNA of rrnA operon |
| ? | NC_000913 | 4209883 = | 3 (0.080) | intergenic (+34/‑160) | gltV/rrlE | tRNA‑Glu/23S ribosomal RNA of rrnE operon | |||||
| * | ? | NC_000913 | 4037399 = | NA (NA) | 8 (0.210) | 6/252 | 3.9 | 12.7% | intergenic (+64/‑120) | alaT/rrlA | tRNA‑Ala/23S ribosomal RNA of rrnA operon |
| ? | NC_000913 | 4168481 = | 56 (1.440) | intergenic (+34/‑160) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA of rrnB operon | |||||
| * | ? | NC_000913 | 3943544 = | 2 (0.050) | 8 (0.210) | 6/252 | 3.9 | 80.2% | intergenic (+34/‑160) | gltU/rrlC | tRNA‑Glu/23S ribosomal RNA of rrnC operon |
| ? | NC_000913 | 4037399 = | NA (NA) | intergenic (+64/‑120) | alaT/rrlA | tRNA‑Ala/23S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | = 2432896 | 38 (0.980) | 6 (0.160) | 6/246 | 3.9 | 13.6% | coding (47/1269 nt) | folC | bifunctional folylpolyglutamate synthase/ dihydrofolate synthase |
| ? | NC_000913 | = 2432915 | 40 (1.070) | coding (28/1269 nt) | folC | bifunctional folylpolyglutamate synthase/ dihydrofolate synthase | |||||
| * | ? | NC_000913 | 1552011 = | 26 (0.670) | 4 (0.130) +26 bp |
4/204 | 4.0 | 16.2% | intergenic (+20/+387) | fdnI/yddM | formate dehydrogenase‑N, cytochrome B556 (gamma) subunit, nitrate‑inducible/putative DNA‑binding transcriptional regulator |
| ? | NC_000913 | 2673774 = | NA (NA) | intergenic (+6/+42) | yphA/yphB | DoxX family inner membrane protein/mutarotase superfamily protein, YphB family | |||||
| * | ? | NC_000913 | = 3091097 | 30 (0.770) | 5 (0.140) | 5/238 | 4.1 | 15.9% | intergenic (+43/‑37) | endA/rsmE | DNA‑specific endonuclease I/16S rRNA m(3)U1498 methyltransferase, SAM‑dependent |
| ? | NC_000913 | = 3091103 | 25 (0.690) | intergenic (+49/‑31) | endA/rsmE | DNA‑specific endonuclease I/16S rRNA m(3)U1498 methyltransferase, SAM‑dependent | |||||