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 58 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP006881 | 2,992,488 | 0 | A | C | 75.3% | 5.2 / 29.3 | 83 | noncoding (2286/2928 nt) | U712_21375 | 23S ribosomal RNA |
| * | CP006881 | 2,992,522 | 0 | T | C | 51.6% | ‑6.0 / 79.4 | 94 | noncoding (2252/2928 nt) | U712_21375 | 23S ribosomal RNA |
| * | CP006881 | 2,992,467 | 0 | T | C | 38.6% | 0.5 / 13.2 | 70 | noncoding (2307/2928 nt) | U712_21375 | 23S ribosomal RNA |
| * | CP006881 | 2,992,541 | 0 | G | C | 38.4% | 0.0 / 10.9 | 87 | noncoding (2233/2928 nt) | U712_21375 | 23S ribosomal RNA |
| * | CP006881 | 2,992,419 | 0 | A | C | 37.2% | ‑3.8 / 10.6 | 51 | noncoding (2355/2928 nt) | U712_21375 | 23S ribosomal RNA |
| * | CP006881 | 2,992,473 | 0 | A | C | 36.9% | ‑2.3 / 21.1 | 74 | noncoding (2301/2928 nt) | U712_21375 | 23S ribosomal RNA |
| * | CP006881 | 100,392 | 0 | T | G | 33.3% | 65.3 / 29.8 | 58 | noncoding (2286/2928 nt) | U712_20965 | 23S ribosomal RNA |
| * | CP006881 | 1,216,190 | 0 | T | G | 33.2% | 406.3 / 93.1 | 225 | G18G (GGT→GGG) | U712_06090 | UPF0752 sporulation protein yjcZ |
| * | CP006881 | 1,309,742 | 0 | A | G | 32.1% | 421.0 / 74.2 | 274 | intergenic (+27/‑26) | U712_06660/U712_06665 | Phage‑like element PBSX protein xepA/Protein xhlA |
| * | CP006881 | 1,216,202 | 0 | T | G | 31.1% | 418.5 / 82.6 | 222 | G22G (GGT→GGG) | U712_06090 | UPF0752 sporulation protein yjcZ |
| * | CP006881 | 2,992,447 | 0 | T | G | 31.0% | ‑1.1 / 15.7 | 61 | noncoding (2327/2928 nt) | U712_21375 | 23S ribosomal RNA |
| * | CP006881 | 2,992,449 | 0 | A | G | 30.6% | ‑0.7 / 21.3 | 62 | noncoding (2325/2928 nt) | U712_21375 | 23S ribosomal RNA |
| * | CP006881 | 2,443,500 | 0 | A | C | 29.7% | 565.9 / 66.0 | 274 | G89G (GGT→GGG) | U712_12455 | Chaperone protein DnaJ |
| * | CP006881 | 1,051,291 | 0 | G | C | 27.9% | 217.2 / 23.2 | 203 | A21P (GCC→CCC) | U712_05170 | Protoporphyrinogen oxidase |
| * | CP006881 | 100,358 | 0 | A | G | 27.5% | 171.9 / 18.8 | 120 | noncoding (2252/2928 nt) | U712_20965 | 23S ribosomal RNA |
| * | CP006881 | 2,992,480 | 0 | A | G | 27.5% | 2.4 / 16.7 | 81 | noncoding (2294/2928 nt) | U712_21375 | 23S ribosomal RNA |
| * | CP006881 | 3,554,122 | 0 | A | G | 27.4% | 356.7 / 18.9 | 196 | I274V (ATC→GTC) | U712_18220 | putative ATP‑dependent helicase ywqA |
| * | CP006881 | 1,216,214 | 0 | C | G | 27.4% | 363.7 / 78.4 | 201 | G26G (GGC→GGG) | U712_06090 | UPF0752 sporulation protein yjcZ |
| * | CP006881 | 2,992,483 | 0 | A | G | 27.2% | 3.8 / 13.5 | 81 | noncoding (2291/2928 nt) | U712_21375 | 23S ribosomal RNA |
| * | CP006881 | 100,378 | 0 | T | G | 27.0% | 111.8 / 10.7 | 75 | noncoding (2272/2928 nt) | U712_20965 | 23S ribosomal RNA |
| Marginal new junction evidence (lowest skew 10 of 19 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP006881 | 3301923 = | 232 (0.850) | 23 (0.000) +34 bp |
22/230 | 11.6 | 0.63% | intergenic (‑295/+3) | U712_16985/U712_16990 | Central glycolytic genes regulator/Arabinose‑proton symporter |
| ? | Exported | 6207 = | 9179 (0.730) | coding (320/324 nt) | lacZalpha | /vntifkey=4 | |||||
| * | ? | CP006881 | = 2429288 | 271 (0.990) | 27 (0.000) | 26/298 | 12.8 | 0.54% | coding (62/117 nt) | U712_12375 | Hypothetical Protein |
| ? | Exported | 5613 = | 9587 (0.760) | intergenic (+882/‑275) | ampR/lacZalpha | /vntifkey=4//vntifkey=4 | |||||
| * | ? | CP006881 | = 1730182 | 248 (0.900) | 21 (0.090) +22 bp |
14/254 | 15.1 | 8.4% | intergenic (+111/‑165) | U712_08885/U712_08890 | Putative penicillin‑binding protein pbpX/Ribonuclease Y |
| ? | CP006881 | = 3303322 | 292 (1.060) | intergenic (‑2/‑202) | U712_16990/U712_16995 | Arabinose‑proton symporter/Arabinose metabolism transcriptional repressor | |||||
| * | ? | CP006881 | 1730132 = | 266 (0.970) | 17 (0.000) | 14/296 | 16.5 | 0.31% | intergenic (+61/‑215) | U712_08885/U712_08890 | Putative penicillin‑binding protein pbpX/Ribonuclease Y |
| ? | Exported | = 5812 | 10750 (0.860) | intergenic (+1081/‑76) | ampR/lacZalpha | /vntifkey=4//vntifkey=4 | |||||
| * | ? | CP006881 | 9457 = | 271 (0.990) | 9 (0.030) | 8/286 | 18.8 | 3.6% | coding (2464/2466 nt) | U712_00040 | DNA gyrase subunit A |
| ? | CP006881 | 3301929 = | 221 (0.840) | coding (1392/1395 nt) | U712_16990 | Arabinose‑proton symporter | |||||
| * | ? | CP006881 | 9811 = | 99 (0.360) | 271 (0.990) +G |
8/296 | 19.1 | 58.4% | noncoding (2/1555 nt) | U712_20835 | 16S ribosomal RNA |
| ? | CP006881 | = 598402 | 289 (1.050) | intergenic (+98/‑65) | U712_21115/U712_21120 | tRNA‑Gly/16S ribosomal RNA | |||||
| * | ? | CP006881 | = 9745 | 214 (0.780) | 30 (0.110) +C |
7/296 | 19.7 | 13.3% | intergenic (+286/‑65) | U712_00040/U712_20835 | DNA gyrase subunit A/16S ribosomal RNA |
| ? | CP006881 | = 2996493 | 180 (0.660) | noncoding (2/1554 nt) | U712_21380 | 16S ribosomal RNA | |||||
| * | ? | CP006881 | = 909665 | 170 (0.620) | 8 (0.030) +C |
6/296 | 20.3 | 4.4% | intergenic (+227/‑65) | U712_04450/U712_21145 | Uncharacterized protein ygxA/16S ribosomal RNA |
| ? | CP006881 | = 2996493 | 180 (0.660) | noncoding (2/1554 nt) | U712_21380 | 16S ribosomal RNA | |||||
| * | ? | CP006881 | = 598402 | 289 (1.050) | 11 (0.040) +C |
6/296 | 20.3 | 4.5% | intergenic (+98/‑65) | U712_21115/U712_21120 | tRNA‑Gly/16S ribosomal RNA |
| ? | CP006881 | = 2996493 | 180 (0.660) | noncoding (2/1554 nt) | U712_21380 | 16S ribosomal RNA | |||||
| * | ? | CP006881 | = 2276558 | 310 (1.130) | 5 (0.020) | 5/294 | 20.8 | 1.6% | coding (377/558 nt) | U712_11490 | ADP‑ribose pyrophosphatase |
| ? | CP006881 | 2276563 = | 309 (1.140) | coding (372/558 nt) | U712_11490 | ADP‑ribose pyrophosphatase | |||||