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 48 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | JE3692‑4 | 699,722 | 0 | A | G | 57.1% | 5.1 / 94.8 | 70 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | JE3692‑4 | 4,360,849 | 0 | A | G | 55.2% | ‑2.8 / 183.6 | 125 | intergenic (‑70/+404) | PP_3820/PP_3821 | Group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | JE3692‑4 | 1,327,121 | 0 | C | T | 51.4% | 49.8 / 172.9 | 107 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | JE3692‑4 | 4,365,337 | 0 | A | C | 46.7% | 16.0 / 16.3 | 30 | T107P (ACG→CCG) | PP_3827 | 2‑nitropropane dioxygenase |
| * | JE3692‑4 | 195,634 | 0 | C | T | 38.8% | 264.3 / 227.8 | 183 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 196,351 | 0 | C | G | 35.0% | 278.8 / 254.0 | 204 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 4,356,434 | 0 | C | G | 34.8% | 34.9 / 11.7 | 23 | intergenic (+21/‑135) | PP_3817/PP_3818 | Polyamine ABC transporter, ATP‑binding protein/Periplamic phosphate‑binding protein |
| * | JE3692‑4 | 196,390 | 0 | T | C | 34.7% | 221.1 / 158.3 | 144 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 5,999,965 | 0 | C | A | 34.5% | 163.4 / 99.6 | 84 | intergenic (+183/‑363) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | JE3692‑4 | 5,908,836 | 0 | A | G | 33.3% | 51.7 / 11.3 | 32 | intergenic (‑160/+74) | PP_5172/PP_5173 | hypothetical protein/RND efflux transporter |
| * | JE3692‑4 | 2,184,203 | 0 | T | C | 30.7% | 180.4 / 69.4 | 114 | N269N (AAT→AAC) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 5,999,970 | 0 | C | T | 30.0% | 181.8 / 81.6 | 90 | intergenic (+188/‑358) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | JE3692‑4 | 5,999,971 | 0 | A | G | 30.0% | 189.9 / 80.6 | 90 | intergenic (+189/‑357) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | JE3692‑4 | 5,999,981 | 0 | T | C | 30.0% | 180.1 / 70.5 | 90 | intergenic (+199/‑347) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | JE3692‑4 | 1,927,172 | 0 | T | C | 28.9% | 86.5 / 13.5 | 45 | intergenic (+15/+46) | PP_1720/PP_1721 | Alcohol dehydrogenase, zinc‑containing/putative phosphoserine phosphatase |
| * | JE3692‑4 | 2,184,200 | 0 | G | A | 28.7% | 199.9 / 34.1 | 111 | T268T (ACG→ACA) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 5,615,093 | 0 | C | G | 28.4% | 207.1 / 37.9 | 98 | G91R (GGT→CGT) | PP_4925 | conserved protein of unknown function |
| * | JE3692‑4 | 5,999,987 | 0 | A | . | 28.4% | 271.6 / 115.0 | 95 | intergenic (+205/‑341) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | JE3692‑4 | 1,443,114 | 0 | C | G | 28.2% | 81.6 / 17.7 | 40 | intergenic (‑52/+124) | PP_1261/PP_1262 | 2‑ketoaldonate reductase / hydroxypyruvate/glyoxylate reductase/LysR family transcriptional regulator |
| * | JE3692‑4 | 5,519,281 | 0 | C | T | 26.8% | 184.6 / 17.8 | 82 | intergenic (+59/‑191) | PP_4840/PP_4841 | D‑alanine, beta‑alanine, D‑serine, glycine permease/putative Urea ABC transporter, periplasmic protein |
| Marginal new junction evidence (lowest skew 10 of 662 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | JE3692‑4 | = 5566684 | 1 (0.010) | 56 (0.590) +GCC |
31/192 | 3.7 | 98.3% | intergenic (‑84/+87) | PP_4887/PP_4888 | conserved protein of unknown function/putative methyl‑accepting chemotaxis transducer |
| ? | JE3692‑4 | 5566685 = | 1 (0.010) | intergenic (‑85/+86) | PP_4887/PP_4888 | conserved protein of unknown function/putative methyl‑accepting chemotaxis transducer | |||||
| * | ? | JE3692‑4 | 4820317 = | 1 (0.010) | 29 (0.300) | 16/194 | 7.9 | 46.8% | intergenic (‑282/‑273) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | JE3692‑4 | = 4957516 | 65 (0.680) | intergenic (+732/+66) | PP_5673/PP_4352 | putative D‑alanine‑‑D‑alanine ligase/flagellin export apparatus, substrate specificity protein | |||||
| * | ? | JE3692‑4 | 527930 = | 115 (1.180) | 46 (0.550) +ATAAGATGATACCC |
13/170 | 7.9 | 31.8% | noncoding (1168/2902 nt) | PP_23SC | 23S ribosomal RNA |
| ? | JE3692‑4 | 527939 = | NA (NA) | noncoding (1177/2902 nt) | PP_23SC | 23S ribosomal RNA | |||||
| * | ? | JE3692‑4 | 174352 = | NA (NA) | 16 (0.170) | 13/190 | 8.9 | NA | noncoding (1150/2902 nt) | PP_23SA | 23S ribosomal RNA |
| ? | JE3692‑4 | 174383 = | NA (NA) | noncoding (1181/2902 nt) | PP_23SA | 23S ribosomal RNA | |||||
| * | ? | JE3692‑4 | = 173119 | NA (NA) | 14 (0.150) | 11/186 | 9.7 | NA | intergenic (+209/‑84) | PP_16SA/PP_23SA | 16S ribosomal RNA/23S ribosomal RNA |
| ? | JE3692‑4 | = 173149 | NA (NA) | intergenic (+239/‑54) | PP_16SA/PP_23SA | 16S ribosomal RNA/23S ribosomal RNA | |||||
| * | ? | JE3692‑4 | 1011335 = | 91 (0.930) | 3 (0.060) +44 bp |
3/110 | 9.9 | 5.9% | intergenic (‑273/‑254) | PP_0871/PP_0872 | putative Glycine betaine/carnitine/choline ABC transporter, permease protein/Peptide chain release factor 3 |
| ? | JE3692‑4 | = 1817132 | 82 (0.840) | intergenic (+107/+21) | PP_1614/PP_1615 | 2‑C‑methyl‑D‑erythritol 4‑phosphate cytidylyltransferase/Transcriptional regulator, LysR family | |||||
| * | ? | JE3692‑4 | = 511980 | 66 (0.680) | 3 (0.060) +44 bp |
3/110 | 9.9 | 6.4% | intergenic (+120/‑28) | PP_0422/PP_0423 | Indole‑3‑glycerol phosphate synthase/conserved protein of unknown function |
| ? | JE3692‑4 | 1011335 = | 91 (0.930) | intergenic (‑273/‑254) | PP_0871/PP_0872 | putative Glycine betaine/carnitine/choline ABC transporter, permease protein/Peptide chain release factor 3 | |||||
| * | ? | JE3692‑4 | = 4820274 | 24 (0.250) | 19 (0.200) | 11/192 | 10.0 | 28.1% | intergenic (‑239/‑316) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | JE3692‑4 | = 6000042 | 74 (0.780) | intergenic (+260/‑286) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | JE3692‑4 | = 1325454 | 23 (0.240) | 11 (0.120) | 10/182 | 10.0 | 34.2% | intergenic (‑424/‑49) | PP_1156/PP_16SE | putative inner membrane protein/16S ribosomal RNA |
| ? | JE3692‑4 | = 1325506 | NA (NA) | noncoding (4/1522 nt) | PP_16SE | 16S ribosomal RNA | |||||
| * | ? | JE3692‑4 | 1011335 = | 91 (0.930) | 3 (0.050) +43 bp |
3/112 | 10.0 | 5.3% | intergenic (‑273/‑254) | PP_0871/PP_0872 | putative Glycine betaine/carnitine/choline ABC transporter, permease protein/Peptide chain release factor 3 |
| ? | JE3692‑4 | 1576680 = | 100 (1.020) | intergenic (‑200/+113) | PP_1383/PP_1384 | porin‑like protein/Probable efflux pump outer membrane protein TtgC | |||||