mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 157 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | W3110S.gb | 1,072,077 | 0 | C | A | 73.5% | 63.6 / 44.1 | 49 | E37D (GAG→GAT) | rarA | predicted hydrolase |
| * | W3110S.gb | 4,413,370 | 0 | A | T | 73.0% | 61.8 / 25.2 | 37 | N679Y (AAT→TAT) | rnr | exoribonuclease R, RNase R |
| * | W3110S.gb | 2,034,193 | 1 | . | A | 72.0% | 121.7 / 48.8 | 50 | coding (262/1419 nt) | dcm | DNA cytosine methylase |
| * | W3110S.gb | 4,173,325 | 1 | . | T | 72.0% | 58.4 / 21.9 | 25 | intergenic (+67/‑102) | chiA/bfd | periplasmic endochitinase/bacterioferritin‑associated ferredoxin |
| * | W3110S.gb | 3,163,682 | 0 | G | A | 71.6% | 114.2 / 56.9 | 74 | F316F (TTC→TTT) | parC | DNA topoisomerase IV, subunit A |
| * | W3110S.gb | 2,821,153 | 0 | T | A | 71.4% | 65.1 / 32.6 | 42 | E48V (GAG→GTG) | recX | regulatory protein for RecA |
| * | W3110S.gb | 2,797,548 | 1 | . | C | 71.0% | 99.7 / 34.2 | 38 | intergenic (‑397/‑272) | stpA/ygaW | DNA binding protein, nucleoid‑associated/predicted inner membrane protein |
| * | W3110S.gb | 26,997 | 0 | C | A | 71.0% | 69.5 / 65.5 | 62 | R241S (CGC→AGC) | ispH | 1‑hydroxy‑2‑methyl‑2‑(E)‑butenyl 4‑diphosphate reductase, 4Fe‑4S protein |
| * | W3110S.gb | 4,246,122 | 1 | . | A | 66.7% | 44.7 / 22.3 | 21 | intergenic (‑276/+96) | xylE/malG | D‑xylose transporter/maltose transporter subunit |
| * | W3110S.gb | 3,365,057 | 0 | A | T | 65.1% | 69.4 / 69.3 | 66 | pseudogene (18/480 nt) pseudogene (18/1745 nt) | yhcE yhcE | ECK3207:JW3184:b3217; hypothetical protein, N‑ter fragment ECK3207:JW3184+JW3187:b4569; hypothetical protein |
| * | W3110S.gb | 527,255 | 1 | . | C | 63.6% | 46.3 / 26.5 | 22 | coding (83/711 nt) | ylbH | conserved hypothetical protein, rhs‑like |
| * | W3110S.gb | 716,431 | 1 | . | T | 61.3% | 58.9 / 43.0 | 31 | coding (349/411 nt) | ybfG | hypothetical protein |
| * | W3110S.gb | 793,203 | 1 | . | T | 60.0% | 15.0 / 10.9 | 10 | coding (1008/1473 nt) | modF | fused subunits of molybdate transporter and ATP‑binding components of ABC superfamily |
| * | W3110S.gb | 1,654,507 | 1 | . | T | 60.0% | 56.8 / 43.4 | 30 | pseudogene (46/111 nt) | ynfP | ECK1574:JW5257:b4534; hypothetical protein |
| * | W3110S.gb | 2,710,046 | 1 | . | T | 60.0% | 26.0 / 19.1 | 15 | coding (971/1623 nt) | nadB | quinolinate synthase, L‑aspartate oxidase (B protein) subunit |
| * | W3110S.gb | 3,834,811 | 0 | T | G | 59.3% | 28.4 / 26.9 | 27 | D115E (GAT→GAG) | rfaP | kinase that phosphorylates core heptose of lipopolysaccharide |
| * | W3110S.gb | 2,917,088 | 0 | T | C | 58.3% | 53.7 / 120.3 | 96 | T318T (ACA→ACG) | gudD | (D)‑glucarate dehydratase 1 |
| * | W3110S.gb | 4,632,893 | 1 | . | A | 58.3% | 61.7 / 55.7 | 36 | coding (897/1233 nt) | nadR | bifunctional DNA‑binding transcriptional repressor and NMN adenylyltransferase |
| * | W3110S.gb | 1,875,261 | 1 | . | T | 56.5% | 134.1 / 117.2 | 69 | intergenic (+16/‑27) | yeaJ/yeaK | predicted diguanylate cyclase/conserved hypothetical protein |
| * | W3110S.gb | 415,988 | 0 | G | A | 55.8% | 40.4 / 142.0 | 104 | Y63Y (TAC→TAT) | sbcD | exonuclease, dsDNA, ATP‑dependent |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | W3110S.gb | = 3750592 | 0 (0.000) | 87 (2.490) | 4/114 | 999999.0 | 100% | intergenic (‑104/‑69) | tnaA/insH | tryptophanase/L‑cysteine desulfhydrase, PLP‑dependent/IS5 element protein |
| ? | W3110S.gb | 3751792 = | 0 (0.000) | intergenic (+151/+116) | insH/tnaC | IS5 element protein/tryptophanase leader peptide | |||||
| * | ? | W3110S.gb | 3748799 = | 0 (0.000) | 105 (2.800) | 4/122 | 999999.0 | 100% | coding (184/984 nt) | tnaB | tryptophan transporter of low affinity |
| ? | W3110S.gb | 4056222 = | NA (NA) | intergenic (‑564/+15) | yrhB/insB | hypothetical protein/IS1 transposase InsAB' | |||||
| * | ? | W3110S.gb | = 2412225 | NA (NA) | 90 (2.400) | 4/122 | 999999.0 | 59.2% | intergenic (‑55/‑782) | insA/yfbQ | IS1 element protein/predicted aminotransferase |
| ? | W3110S.gb | = 3748807 | 62 (1.660) | coding (176/984 nt) | tnaB | tryptophan transporter of low affinity | |||||
| * | ? | W3110S.gb | = 2320794 | 0 (0.000) | 59 (1.750) | 4/110 | 999999.0 | 100% | intergenic (‑59/+11) | rcsC/insD | hybrid sensory kinase in two‑component regulatory system with RcsB and YojN/IS2 element protein |
| ? | W3110S.gb | 2322131 = | 0 (0.000) | coding (2368/2424 nt) | rcsC | hybrid sensory kinase in two‑component regulatory system with RcsB and YojN | |||||
| * | ? | W3110S.gb | 1050200 = | 25 (0.670) | 90 (2.400) | 4/122 | 999999.0 | 67.4% | intergenic (‑34/‑55) | ymcD/insA | hypothetical protein/IS1 repressor protein InsA |
| ? | W3110S.gb | = 3748807 | 62 (1.660) | coding (176/984 nt) | tnaB | tryptophan transporter of low affinity | |||||
| * | ? | W3110S.gb | = 315707 | NA (NA) | 55 (1.470) | 5/122 | 999999.0 | 100% | coding (654/687 nt) | ykgA | predicted DNA‑binding transcriptional regulator |
| ? | W3110S.gb | 576911 = | 0 (0.000) | coding (76/498 nt) | ybcS | predicted lysozyme | |||||
| * | ? | W3110S.gb | 278387 = | NA (NA) | 105 (2.800) | 4/122 | 999999.0 | 100% | coding (14/363 nt) | afuB | predicted ferric trasnporter subunit |
| ? | W3110S.gb | 3748799 = | 0 (0.000) | coding (184/984 nt) | tnaB | tryptophan transporter of low affinity | |||||