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 (highest frequency 20 of 79 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP006881 | 2,992,535 | 0 | A | C | 57.9% | ‑4.5 / 13.6 | 41 | noncoding (2239/2928 nt) | U712_21375 | 23S ribosomal RNA |
| * | CP006881 | 874,993 | 0 | T | G | 55.0% | ‑0.7 / 15.1 | 20 | intergenic (+31/+5) | U712_04250/U712_04255 | Putative membrane‑bound acyltransferase YfiQ/putative HTH‑type transcriptional regulator yfiR |
| * | CP006881 | 3,735,910 | 0 | C | A | 53.8% | 13.0 / 27.7 | 30 | V66L (GTA→TTA) ‡ | U712_19255 | Quinol oxidase subunit 2 |
| * | CP006881 | 3,735,920 | 0 | G | T | 52.4% | ‑1.5 / 12.7 | 24 | T62T (ACC→ACA) | U712_19255 | Quinol oxidase subunit 2 |
| * | CP006881 | 1,955,464 | 0 | T | G | 46.7% | 10.4 / 29.2 | 45 | intergenic (+27/+67) | U712_09675/U712_21250 | Uncharacterized protein yoeB/tRNA‑Arg |
| * | CP006881 | 2,446,645 | 0 | C | G | 44.1% | 44.1 / 10.5 | 35 | E283Q (GAA→CAA) | U712_12470 | Heat‑inducible transcription repressor hrcA |
| * | CP006881 | 3,735,909 | 0 | A | T | 43.8% | 20.9 / 10.8 | 32 | V66E (GTA→GAA) ‡ | U712_19255 | Quinol oxidase subunit 2 |
| * | CP006881 | 3,592,477 | 0 | G | C | 42.0% | 63.8 / 24.5 | 51 | intergenic (‑61/+33) | U712_18475/U712_18480 | Uncharacterized protein ywmE/Uncharacterized protein ywmD |
| * | CP006881 | 3,735,903 | 0 | T | G | 38.2% | 18.5 / 14.5 | 34 | Y68S (TAC→TCC) | U712_19255 | Quinol oxidase subunit 2 |
| * | CP006881 | 3,592,462 | 0 | T | A | 37.8% | 48.7 / 22.0 | 45 | intergenic (‑46/+48) | U712_18475/U712_18480 | Uncharacterized protein ywmE/Uncharacterized protein ywmD |
| * | CP006881 | 2,446,642 | 0 | T | G | 37.1% | 24.1 / 21.4 | 35 | N284H (AAC→CAC) | U712_12470 | Heat‑inducible transcription repressor hrcA |
| * | CP006881 | 3,369,286 | 0 | T | G | 36.4% | 61.0 / 12.0 | 55 | T24P (ACA→CCA) | U712_17305 | putative glycosyl hydrolase yvdK |
| * | CP006881 | 2,653,043 | 0 | A | C | 36.2% | 56.0 / 14.4 | 47 | V322V (GTT→GTG) | U712_13655 | Holliday junction ATP‑dependent DNA helicase ruvB |
| * | CP006881 | 2,100,386 | 0 | A | C | 36.0% | 57.4 / 17.5 | 50 | intergenic (‑30/+35) | U712_10445/U712_10450 | Protein CgeD/Protein CgeC |
| * | CP006881 | 3,592,470 | 0 | T | A | 34.0% | 64.1 / 21.8 | 50 | intergenic (‑54/+40) | U712_18475/U712_18480 | Uncharacterized protein ywmE/Uncharacterized protein ywmD |
| * | CP006881 | 3,151,131 | 0 | T | G | 33.3% | 31.4 / 10.3 | 33 | F39C (TTT→TGT) | U712_16180 | Uric acid degradation bifunctional protein PucL |
| * | CP006881 | 3,255,490 | 0 | T | G | 32.6% | 59.9 / 17.9 | 43 | A31A (GCT→GCG) | U712_16750 | Hypothetical Protein |
| * | CP006881 | 2,142,747 | 0 | G | T | 31.9% | 98.2 / 19.3 | 72 | Q247K (CAA→AAA) | U712_10705 | HTH‑type transcriptional regulator kdgR |
| * | CP006881 | 3,675,477 | 0 | A | T | 31.8% | 62.9 / 12.4 | 45 | Y266N (TAC→AAC) | U712_18935 | Methylenomycin A resistance protein |
| * | CP006881 | 3,592,476 | 0 | A | C | 31.4% | 60.2 / 24.9 | 51 | intergenic (‑60/+34) | U712_18475/U712_18480 | Uncharacterized protein ywmE/Uncharacterized protein ywmD |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP006881 | 3304613 = | 0 (0.000) | 55 (0.070) +50 bp |
31/152 | 0.1 | 9.3% | intergenic (+1/+48) | U712_16995/U712_17000 | Arabinose metabolism transcriptional repressor/Uncharacterized protein yvbT |
| ? | pSIJ663_pHT315_araE_xy | 9781 = | 1786 (0.740) | intergenic (+5050/–) | ampR/– | –/– | |||||
| * | ? | CP006881 | 2055927 = | 66 (0.790) | 3 (0.040) | 3/236 | 5.8 | 4.7% | coding (1505/1899 nt) | U712_10185 | Squalene‑‑hopene cyclase |
| ? | CP006881 | = 2055922 | 61 (0.780) | coding (1500/1899 nt) | U712_10185 | Squalene‑‑hopene cyclase | |||||
| * | ? | CP006881 | 9457 = | 82 (0.990) | 537 (6.780) | 3/240 | 5.9 | 85.9% | coding (2464/2466 nt) | U712_00040 | DNA gyrase subunit A |
| ? | CP006881 | 3301929 = | 98 (1.240) | coding (1392/1395 nt) | U712_16990 | Arabinose‑proton symporter | |||||
| * | ? | pSIJ663_pHT315_araE_xy | = 5551 | 1852 (0.770) | 20 (0.010) | 16/242 | 14.6 | 1.1% | intergenic (+820/–) | ampR/– | –/– |
| ? | pSIJ663_pHT315_araE_xy | 9889 = | NA (NA) | intergenic (+5158/–) | ampR/– | –/– | |||||
| * | ? | pSIJ663_pHT315_araE_xy | 3854 = | 89 (0.040) | 19 (0.010) +A |
11/250 | 16.7 | 30.1% | intergenic (+139/‑17) | eryR/ampR | –/– |
| ? | pSIJ663_pHT315_araE_xy | = 11568 | 0 (0.000) | intergenic (+6837/–) | ampR/– | –/– | |||||
| * | ? | pSIJ663_pHT315_araE_xy | = 5614 | 1955 (0.810) | 8 (0.000) | 8/246 | 18.0 | 0.40% | intergenic (+883/–) | ampR/– | –/– |
| ? | pSIJ663_pHT315_araE_xy | 9532 = | 2033 (0.870) | intergenic (+4801/–) | ampR/– | –/– | |||||