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 | 31.6% | 42.0 / 28.2 | 38 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 1,302,834 | 0 | G | C | 27.8% | 59.7 / 27.7 | 36 | intergenic (+21/‑65) | oppA/oppB | oligopeptide ABC transporter periplasmic binding protein/oligopeptide ABC transporter permease |
| * | NC_000913 | 1,302,835 | 0 | T | A | 27.8% | 45.8 / 23.9 | 36 | intergenic (+22/‑64) | oppA/oppB | oligopeptide ABC transporter periplasmic binding protein/oligopeptide ABC transporter permease |
| * | NC_000913 | 1,302,836 | 0 | G | C | 27.8% | 60.5 / 27.6 | 36 | intergenic (+23/‑63) | oppA/oppB | oligopeptide ABC transporter periplasmic binding protein/oligopeptide ABC transporter permease |
| * | NC_000913 | 1,302,827 | 0 | G | A | 23.5% | 58.9 / 15.0 | 35 | intergenic (+14/‑72) | oppA/oppB | oligopeptide ABC transporter periplasmic binding protein/oligopeptide ABC transporter permease |
| * | NC_000913 | 2,579,157 | 0 | G | T | 23.5% | 72.2 / 14.9 | 34 | R164R (CGG→CGT) | talA | transaldolase A |
| * | NC_000913 | 2,579,154 | 0 | A | C | 22.9% | 66.6 / 11.5 | 35 | A163A (GCA→GCC) | talA | transaldolase A |
| * | NC_000913 | 3,052,886 | 0 | C | G | 21.4% | 60.3 / 14.1 | 28 | A211A (GCG→GCC) | ubiH | 2‑octaprenyl‑6‑methoxyphenol hydroxylase, FAD/NAD(P)‑binding |
| * | NC_000913 | 3,052,897 | 0 | C | G | 21.4% | 59.0 / 14.3 | 28 | G208R (GGC→CGC) | ubiH | 2‑octaprenyl‑6‑methoxyphenol hydroxylase, FAD/NAD(P)‑binding |
| * | NC_000913 | 3,052,890 | 0 | A | C | 20.7% | 54.4 / 14.7 | 29 | L210R (CTG→CGG) | ubiH | 2‑octaprenyl‑6‑methoxyphenol hydroxylase, FAD/NAD(P)‑binding |
| * | NC_000913 | 272,330 | 1 | . | G | 20.0% | 126.1 / 45.8 | 50 | intergenic (+141/‑250) | insN/eyeA | pseudogene, IS911 transposase A;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related/novel sRNA, function unknown, CP4‑6 propahge |
| * | NC_000913 | 3,368,173 | 0 | C | T | 20.0% | 94.6 / 16.9 | 45 | P116L (CCG→CTG) | yhcG | DUF1016 family protein in the PD‑(D/E)XK nuclease superfamily |
| Marginal new junction evidence (lowest skew 10 of 93 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 420940 | 56 (1.520) | 9 (0.270) | 8/238 | 2.8 | 14.5% | intergenic (+30/‑46) | 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 | = 420946 | 55 (1.630) | 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 | = 1992695 | 36 (0.970) | 6 (0.170) | 6/244 | 3.5 | 15.4% | coding (123/549 nt) | pgsA | phosphatidylglycerophosphate synthetase |
| ? | NC_000913 | = 1992709 | 32 (0.920) | coding (109/549 nt) | pgsA | phosphatidylglycerophosphate synthetase | |||||
| * | ? | NC_000913 | 3778171 = | 61 (1.650) | 6 (0.170) | 6/250 | 3.6 | 7.9% | coding (773/1656 nt) | lldP | L‑lactate permease |
| ? | NC_000913 | 3778215 = | 81 (2.280) | coding (817/1656 nt) | lldP | L‑lactate permease | |||||
| * | ? | NC_000913 | 1320795 = | 30 (0.810) | 6 (0.170) | 6/248 | 3.6 | 18.6% | coding (590/1596 nt) | trpD | fused glutamine amidotransferase (component II) of anthranilate synthase/anthranilate phosphoribosyl transferase |
| ? | NC_000913 | 1320828 = | 24 (0.680) | coding (557/1596 nt) | trpD | fused glutamine amidotransferase (component II) of anthranilate synthase/anthranilate phosphoribosyl transferase | |||||
| * | ? | NC_000913 | 1474033 = | 38 (1.030) | 5 (0.150) | 5/240 | 3.8 | 11.5% | intergenic (+20/‑188) | ydbA/ydbC | pseudogene, autotransporter homolog; interrupted by IS2 and IS30/putative NAD(P)‑binding oxidoreductase |
| ? | NC_000913 | 1474063 = | 42 (1.230) | intergenic (+50/‑158) | ydbA/ydbC | pseudogene, autotransporter homolog; interrupted by IS2 and IS30/putative NAD(P)‑binding oxidoreductase | |||||
| * | ? | NC_000913 | 803464 = | 28 (0.760) | 5 (0.150) | 5/242 | 3.8 | 16.7% | intergenic (+144/‑39) | ybhI/ybhJ | putative DASS family tricarboxylate or dicarboxylate transporter/aconitase family protein |
| ? | NC_000913 | 803488 = | 24 (0.700) | intergenic (+168/‑15) | ybhI/ybhJ | putative DASS family tricarboxylate or dicarboxylate transporter/aconitase family protein | |||||
| * | ? | NC_000913 | = 4171625 | 23 (0.620) | 5 (0.140) | 5/248 | 3.9 | 18.6% | intergenic (+81/‑12) | rrlB/rrfB | 23S ribosomal RNA of rrnB operon/5S ribosomal RNA of rrnB operon |
| ? | NC_000913 | = 4213004 | NA (NA) | intergenic (+58/‑36) | rrlE/rrfE | 23S ribosomal RNA of rrnE operon/5S ribosomal RNA of rrnE operon | |||||
| * | ? | NC_000913 | = 4040481 | NA (NA) | 5 (0.140) | 5/248 | 3.9 | 32.3% | intergenic (+58/‑36) | rrlA/rrfA | 23S ribosomal RNA of rrnA operon/5S ribosomal RNA of rrnA operon |
| ? | NC_000913 | = 4040505 | 11 (0.300) | intergenic (+82/‑12) | rrlA/rrfA | 23S ribosomal RNA of rrnA operon/5S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | = 3946688 | 30 (0.810) | 5 (0.140) | 5/248 | 3.9 | 14.9% | intergenic (+81/‑12) | rrlC/rrfC | 23S ribosomal RNA of rrnC operon/5S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 4040481 | NA (NA) | intergenic (+58/‑36) | rrlA/rrfA | 23S ribosomal RNA of rrnA operon/5S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | 2267505 = | 31 (0.840) | 5 (0.140) | 5/244 | 3.9 | 13.1% | coding (1261/1467 nt) | yeiQ | putative NAD‑dependent D‑mannonate oxidoreductase |
| ? | NC_000913 | 2267539 = | 37 (1.070) | coding (1295/1467 nt) | yeiQ | putative NAD‑dependent D‑mannonate oxidoreductase | |||||