mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 29 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 339,979 | 0 | G | A | 73.7% | 58.7 / 19.6 | 38 | V71M (GTG→ATG) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 4,166,892 | 0 | C | T | 51.8% | 1.8 / 33.4 | 27 | noncoding (234/1542 nt) | rrsB | 16S ribosomal RNA |
| * | NC_000913 | 2,722,838 | 0 | G | T | 35.7% | 164.4 / 19.0 | 99 | E38* (GAG→TAG) | pssA | phosphatidylserine synthase |
| * | NC_000913 | 3,054,894 | 0 | G | T | 33.7% | 100.9 / 28.5 | 84 | P184Q (CCA→CAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 2,472,817 | 0 | C | A | 32.0% | 116.2 / 11.7 | 75 | G22V (GGA→GTA) | yfdN | uncharacterized protein YfdN |
| * | NC_000913 | 2,767,445 | 0 | C | A | 31.9% | 177.8 / 10.4 | 91 | intergenic (+90/‑265) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 847,955 | 0 | G | A | 31.7% | 188.4 / 51.1 | 142 | A17V (GCG→GTG) | glnH | L‑glutamine ABC transporter periplasmic binding protein |
| * | NC_000913 | 2,477,265 | 0 | A | C | 31.3% | 161.6 / 19.3 | 83 | L122* (TTA→TGA) | dsdC | DNA‑binding transcriptional dual regulator DsdC |
| * | NC_000913 | 2,365,840 | 0 | T | G | 30.9% | 208.6 / 17.7 | 141 | intergenic (‑220/‑70) | ais/arnB | putative lipopolysaccharide core heptose(II)‑phosphate phosphatase/UDP‑4‑amino‑4‑deoxy‑L‑arabinose aminotransferase |
| * | NC_000913 | 4,280,874 | 0 | G | T | 30.9% | 146.2 / 11.6 | 81 | E299* (GAG→TAG) | yjcE | putative transporter YjcE |
| * | NC_000913 | 4,249,810 | 0 | C | A | 30.0% | 149.5 / 11.3 | 80 | P86Q (CCG→CAG) | malM | maltose regulon periplasmic protein |
| * | NC_000913 | 58,065 | 0 | C | A | 29.8% | 154.8 / 19.4 | 84 | P234P (CCC→CCA) | djlA | co‑chaperone protein DjlA |
| * | NC_000913 | 3,054,886 | 0 | G | T | 28.2% | 149.4 / 22.5 | 86 | Q187K (CAA→AAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 12,152 | 0 | G | T | 27.5% | 158.3 / 12.2 | 91 | intergenic (‑366/‑11) | yaaI/dnaK | DUF2541 domain‑containing protein YaaI/chaperone protein DnaK |
| * | NC_000913 | 1,902,613 | 0 | C | A | 27.4% | 158.3 / 13.6 | 84 | S189Y (TCC→TAC) | manX | mannose‑specific PTS enzyme IIAB component |
| * | NC_000913 | 4,360,965 | 0 | C | A | 26.8% | 300.0 / 19.7 | 138 | E324* (GAG→TAG) | cadC | DNA‑binding transcriptional activator CadC |
| * | NC_000913 | 3,602,706 | 0 | C | A | 26.8% | 82.8 / 16.4 | 56 | G14G (GGG→GGT) | ftsE | cell division protein FtsE |
| * | NC_000913 | 2,288,418 | 0 | G | T | 26.1% | 262.5 / 11.8 | 119 | pseudogene (497/2525 nt) | yejO | adhesin‑like autotransporter YejO |
| * | NC_000913 | 1,687,338 | 0 | G | T | 25.6% | 165.8 / 10.7 | 82 | P347Q (CCG→CAG) | fumA | fumarase A |
| * | NC_000913 | 1,286,874 | 0 | G | A | 23.3% | 118.0 / 11.9 | 61 | A56T (GCT→ACT) | ychS | putative uncharacterized protein YchS |
| Marginal new junction evidence (lowest skew 10 of 12 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 4606166 | 97 (1.080) | 9 (0.140) | 8/420 | 5.0 | 12.6% | intergenic (‑1/+34) | leuV/leuP | tRNA‑Leu/tRNA‑Leu |
| ? | NC_000913 | 4606403 = | 57 (0.900) | intergenic (‑2/+266) | leuQ/rsmC | tRNA‑Leu/16S rRNA m(2)G1207 methyltransferase | |||||
| * | ? | NC_000913 | 4542682 = | 151 (1.680) | 9 (0.100) | 9/580 | 6.4 | 6.3% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 121 (1.390) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 696741 | 65 (0.720) | 6 (0.090) | 5/442 | 6.6 | 11.7% | intergenic (‑1/+15) | metU/glnW | tRNA‑Met/tRNA‑Gln |
| ? | NC_000913 | 697135 = | 43 (0.650) | intergenic (‑2/+378) | metT/asnB | tRNA‑Met/asparagine synthetase B | |||||
| * | ? | NC_000913 | = 1286906 | 53 (0.590) | 9 (0.110) | 6/558 | 7.4 | 16.9% | coding (198/276 nt) | ychS | putative uncharacterized protein YchS |
| ? | NC_000913 | 1287557 = | 39 (0.460) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | = 2818275 | 24 (0.270) | 3 (0.050) | 3/440 | 7.8 | 8.6% | intergenic (‑1/+198) | argY/argV | tRNA‑Arg/tRNA‑Arg |
| ? | NC_000913 | 2818551 = | 46 (0.700) | intergenic (‑2/+2) | argV/serV | tRNA‑Arg/tRNA‑Ser | |||||
| * | ? | NC_000913 | = 2521006 | 79 (0.880) | 3 (0.040) | 3/446 | 7.9 | 5.5% | noncoding (76/76 nt) | valU | tRNA‑Val |
| ? | NC_000913 | 2521249 = | 44 (0.660) | intergenic (+1/‑4) | valY/lysV | tRNA‑Val/tRNA‑Lys | |||||
| * | ? | NC_000913 | = 3150677 | 63 (0.700) | 4 (0.050) | 4/520 | 8.1 | 6.7% | intergenic (+131/+141) | yghA/exbD | NADP(+)‑dependent aldehyde reductase/Ton complex subunit ExbD |
| ? | NC_000913 | 3150791 = | 57 (0.730) | intergenic (+245/+27) | yghA/exbD | NADP(+)‑dependent aldehyde reductase/Ton complex subunit ExbD | |||||
| * | ? | NC_000913 | = 4542690 | 163 (1.810) | 5 (0.060) | 5/580 | 8.2 | 3.5% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 121 (1.390) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 2817942 | 50 (0.560) | 4 (0.050) | 4/558 | 8.5 | 7.4% | intergenic (‑82/+117) | argQ/argZ | tRNA‑Arg/tRNA‑Arg |
| ? | NC_000913 | 2818492 = | 54 (0.640) | noncoding (58/77 nt) | argV | tRNA‑Arg | |||||
| * | ? | NC_000913 | = 2817942 | 50 (0.560) | 4 (0.050) | 4/558 | 8.5 | 9.7% | intergenic (‑82/+117) | argQ/argZ | tRNA‑Arg/tRNA‑Arg |
| ? | NC_000913 | 2818078 = | 28 (0.330) | noncoding (58/77 nt) | argZ | tRNA‑Arg | |||||