mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 185 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | 1 | 1,999,251 | 0 | G | A | 47.2% | 75.4 / 32.1 | 72 | intergenic (+149875/‑741) | unknown/unknown | tRNA‑Leu‑CAA/tRNA‑Asp‑GTC |
| * | 1 | 2,138,106 | 0 | C | A | 43.1% | 80.3 / 23.7 | 58 | intergenic (‑18161/–) | unknown/– | tRNA‑Met‑CAT/– |
| * | 1 | 2,004,169 | 0 | T | G | 42.9% | 150.2 / 32.6 | 91 | intergenic (+4002/+52587) | unknown/unknown | tRNA‑Asp‑GTC/tRNA‑Lys‑CTT |
| * | 1 | 1,763,573 | 0 | A | C | 42.4% | 114.6 / 10.6 | 59 | intergenic (‑39238/‑10704) | unknown/unknown | tRNA‑Arg‑CCG/tRNA‑Asn‑GTT |
| * | 1 | 1,532,631 | 0 | A | C | 41.9% | 165.9 / 15.8 | 86 | intergenic (+200109/+69169) | unknown/unknown | tRNA‑Met‑CAT/tRNA‑Val‑GAC |
| * | 1 | 1,728,961 | 0 | A | C | 40.3% | 150.3 / 14.9 | 77 | intergenic (‑4626/‑45316) | unknown/unknown | tRNA‑Arg‑CCG/tRNA‑Asn‑GTT |
| * | 1 | 384,205 | 0 | G | A | 40.0% | 109.8 / 47.1 | 85 | intergenic (‑37383/+28267) | unknown/unknown | tRNA‑Ser‑GCT/tRNA‑Ala‑TGC |
| * | 1 | 1,665,707 | 0 | C | T | 40.0% | 97.1 / 34.5 | 72 | intergenic (‑39582/‑33837) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑Ser‑GGA |
| * | 1 | 548,198 | 0 | T | G | 39.3% | 160.1 / 19.7 | 90 | intergenic (+57283/‑148510) | unknown/unknown | tRNA‑SeC(p)‑TCA/SSU rRNA ## 16S rRNA, small subunit ribosomal RNA |
| * | 1 | 2,003,409 | 0 | T | A | 38.8% | 136.7 / 38.0 | 80 | intergenic (+3242/+53347) | unknown/unknown | tRNA‑Asp‑GTC/tRNA‑Lys‑CTT |
| * | 1 | 1,973,297 | 0 | C | T | 38.0% | 86.6 / 26.6 | 71 | intergenic (+123921/‑26695) | unknown/unknown | tRNA‑Leu‑CAA/tRNA‑Asp‑GTC |
| * | 1 | 1,665,648 | 0 | A | C | 37.9% | 138.3 / 14.3 | 66 | intergenic (‑39523/‑33896) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑Ser‑GGA |
| * | 1 | 241,254 | 0 | A | C | 37.4% | 178.8 / 13.0 | 91 | intergenic (+105132/+21895) | unknown/unknown | tRNA‑Val‑TAC/LSU rRNA ## 23S rRNA, large subunit ribosomal RNA |
| * | 1 | 425,311 | 0 | A | T | 37.4% | 137.2 / 41.7 | 91 | intergenic (‑11012/‑65514) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| * | 1 | 2,021,854 | 0 | T | A | 37.3% | 97.1 / 21.0 | 59 | intergenic (+21687/+34902) | unknown/unknown | tRNA‑Asp‑GTC/tRNA‑Lys‑CTT |
| * | 1 | 749,306 | 0 | A | T | 37.0% | 151.4 / 30.3 | 81 | intergenic (+14433/+72527) | unknown/unknown | tRNA‑Asn‑GTT/tRNA‑Thr‑GGT |
| * | 1 | 425,323 | 0 | T | G | 36.7% | 172.5 / 21.6 | 90 | intergenic (‑11024/‑65502) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| * | 1 | 548,211 | 0 | C | T | 36.1% | 132.1 / 30.0 | 84 | intergenic (+57296/‑148497) | unknown/unknown | tRNA‑SeC(p)‑TCA/SSU rRNA ## 16S rRNA, small subunit ribosomal RNA |
| * | 1 | 448,341 | 0 | G | A | 35.6% | 194.3 / 31.1 | 101 | intergenic (‑34042/‑42484) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| * | 1 | 1,711,979 | 0 | G | T | 35.4% | 154.3 / 16.4 | 79 | intergenic (+12346/+6196) | unknown/unknown | tRNA‑Ser‑GGA/tRNA‑Trp‑CCA |
| Marginal new junction evidence (lowest skew 10 of 17 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | 1 | = 1337282 | 26 (0.370) | 27 (0.320) +CCTCA |
14/358 | 3.1 | 47.1% | intergenic (+4760/+264518) | unknown/unknown | tRNA‑Met‑CAT/tRNA‑Val‑GAC |
| ? | 1 | 1337283 = | 30 (0.350) | intergenic (+4761/+264517) | unknown/unknown | tRNA‑Met‑CAT/tRNA‑Val‑GAC | |||||
| * | ? | 1 | 1918072 = | 80 (0.940) | 8 (0.180) | 7/238 | 3.4 | 13.8% | intergenic (+68696/‑81920) | unknown/unknown | tRNA‑Leu‑CAA/tRNA‑Asp‑GTC |
| ? | 1 | = 1918067 | 58 (1.290) | intergenic (+68691/‑81925) | unknown/unknown | tRNA‑Leu‑CAA/tRNA‑Asp‑GTC | |||||
| * | ? | 1 | = 394429 | 106 (1.240) | 5 (0.060) | 5/416 | 6.4 | 4.9% | intergenic (‑47607/+18043) | unknown/unknown | tRNA‑Ser‑GCT/tRNA‑Ala‑TGC |
| ? | 1 | = 394451 | 95 (1.210) | intergenic (‑47629/+18021) | unknown/unknown | tRNA‑Ser‑GCT/tRNA‑Ala‑TGC | |||||
| * | ? | 1 | 2051137 = | 71 (0.830) | 4 (0.050) | 4/416 | 6.9 | 6.2% | intergenic (+50970/+5619) | unknown/unknown | tRNA‑Asp‑GTC/tRNA‑Lys‑CTT |
| ? | 1 | 2051408 = | 56 (0.710) | intergenic (+51241/+5348) | unknown/unknown | tRNA‑Asp‑GTC/tRNA‑Lys‑CTT | |||||
| * | ? | 1 | = 1762908 | 75 (0.880) | 4 (0.050) | 4/434 | 7.1 | 5.4% | intergenic (‑38573/‑11369) | unknown/unknown | tRNA‑Arg‑CCG/tRNA‑Asn‑GTT |
| ? | 1 | = 1762965 | 68 (0.830) | intergenic (‑38630/‑11312) | unknown/unknown | tRNA‑Arg‑CCG/tRNA‑Asn‑GTT | |||||
| * | ? | 1 | 1301667 = | 82 (0.960) | 4 (0.050) | 4/432 | 7.1 | 5.0% | intergenic (‑191313/‑4802) | unknown/unknown | tRNA‑Gly‑GCC/tRNA‑Met‑CAT |
| ? | 1 | 1301845 = | 75 (0.920) | intergenic (‑191491/‑4624) | unknown/unknown | tRNA‑Gly‑GCC/tRNA‑Met‑CAT | |||||
| * | ? | 1 | = 266030 | NA (NA) | 4 (0.050) | 4/440 | 7.1 | NA | noncoding (142/3023 nt) | unknown | LSU rRNA ## 23S rRNA, large subunit ribosomal RNA |
| ? | 1 | = 266035 | NA (NA) | noncoding (137/3023 nt) | unknown | LSU rRNA ## 23S rRNA, large subunit ribosomal RNA | |||||
| * | ? | 1 | 264869 = | NA (NA) | 5 (0.060) | 3/420 | 7.5 | NA | noncoding (1303/3023 nt) | unknown | LSU rRNA ## 23S rRNA, large subunit ribosomal RNA |
| ? | 1 | 265008 = | NA (NA) | noncoding (1164/3023 nt) | unknown | LSU rRNA ## 23S rRNA, large subunit ribosomal RNA | |||||
| * | ? | 1 | = 1695603 | 55 (0.640) | 3 (0.040) | 3/436 | 7.6 | 4.6% | intergenic (‑69478/‑3941) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑Ser‑GGA |
| ? | 1 | = 1695890 | 72 (0.880) | intergenic (‑69765/‑3654) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑Ser‑GGA | |||||
| * | ? | 1 | = 1688138 | 75 (0.880) | 3 (0.040) | 3/432 | 7.6 | 4.0% | intergenic (‑62013/‑11406) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑Ser‑GGA |
| ? | 1 | = 1688197 | 74 (0.910) | intergenic (‑62072/‑11347) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑Ser‑GGA | |||||