mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 47 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 1,327,121 | 0 | C | T | 62.8% | 14.4 / 77.0 | 78 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 195,634 | 0 | C | T | 59.2% | 7.0 / 76.9 | 73 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 1,512,914 | 0 | T | G | 58.4% | 51.1 / 108.7 | 89 | noncoding (223/376 nt) | PP_mr18 | RNaseP_bact_a ncRNA |
| * | NC_002947 | 1,512,956 | 0 | T | A | 55.7% | 39.3 / 121.6 | 98 | noncoding (265/376 nt) | PP_mr18 | RNaseP_bact_a ncRNA |
| * | NC_002947 | 1,512,955 | 0 | G | A | 55.1% | 25.6 / 124.6 | 98 | noncoding (264/376 nt) | PP_mr18 | RNaseP_bact_a ncRNA |
| * | NC_002947 | 1,512,978 | 0 | C | T | 52.2% | 3.7 / 127.7 | 92 | noncoding (287/376 nt) | PP_mr18 | RNaseP_bact_a ncRNA |
| * | NC_002947 | 1,512,962 | 0 | C | . | 51.6% | 153.7 / 228.6 | 93 | noncoding (271/376 nt) | PP_mr18 | RNaseP_bact_a ncRNA |
| * | NC_002947 | 1,512,963 | 0 | A | T | 51.6% | 7.9 / 133.0 | 93 | noncoding (272/376 nt) | PP_mr18 | RNaseP_bact_a ncRNA |
| * | NC_002947 | 1,512,968 | 0 | T | C | 51.6% | 9.2 / 122.0 | 93 | noncoding (277/376 nt) | PP_mr18 | RNaseP_bact_a ncRNA |
| * | NC_002947 | 1,512,997 | 0 | A | T | 51.4% | 3.3 / 102.1 | 72 | noncoding (306/376 nt) | PP_mr18 | RNaseP_bact_a ncRNA |
| * | NC_002947 | 1,512,993 | 0 | T | C | 51.3% | 0.9 / 103.5 | 76 | noncoding (302/376 nt) | PP_mr18 | RNaseP_bact_a ncRNA |
| * | NC_002947 | 4,348,705 | 0 | A | G | 50.9% | 7.7 / 71.0 | 54 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 1,512,983 | 0 | C | T | 49.4% | ‑2.1 / 117.3 | 83 | noncoding (292/376 nt) | PP_mr18 | RNaseP_bact_a ncRNA |
| * | NC_002947 | 1,513,005 | 0 | C | A | 49.3% | ‑4.7 / 113.9 | 75 | noncoding (314/376 nt) | PP_mr18 | RNaseP_bact_a ncRNA |
| * | NC_002947 | 699,722 | 0 | A | G | 49.2% | 3.7 / 86.1 | 63 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 1,512,982 | 0 | A | T | 48.8% | ‑6.2 / 121.4 | 84 | noncoding (291/376 nt) | PP_mr18 | RNaseP_bact_a ncRNA |
| * | NC_002947 | 195,559 | 0 | C | A | 47.4% | 42.0 / 75.2 | 58 | T355T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 1,513,014 | 0 | G | T | 47.2% | ‑3.0 / 99.5 | 72 | noncoding (323/376 nt) | PP_mr18 | RNaseP_bact_a ncRNA |
| * | NC_002947 | 1,513,015 | 0 | C | G | 47.2% | 7.1 / 113.8 | 72 | noncoding (324/376 nt) | PP_mr18 | RNaseP_bact_a ncRNA |
| * | NC_002947 | 1,512,853 | 0 | A | G | 46.1% | 13.7 / 96.9 | 77 | noncoding (162/376 nt) | PP_mr18 | RNaseP_bact_a ncRNA |
| Marginal new junction evidence (lowest skew 10 of 117 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 652782 | 19 (0.530) | 7 (0.220) | 7/248 | 3.0 | 46.1% | coding (1961/1962 nt) | ctpL | methyl‑accepting chemotaxis protein CtpL |
| ? | NC_002947 | = 4808159 | 0 (0.000) | intergenic (‑268/‑287) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | = 1780066 | 15 (0.410) | 8 (0.230) | 7/274 | 3.4 | 37.9% | intergenic (+25/+81) | PP_1587/dapC | NhaP‑type Na+(K+)/H+ antiporter/N‑succinyl‑L,L‑diaminopimelate aminotransferase |
| ? | NC_002947 | 1780129 = | 12 (0.350) | intergenic (+88/+18) | PP_1587/dapC | NhaP‑type Na+(K+)/H+ antiporter/N‑succinyl‑L,L‑diaminopimelate aminotransferase | |||||
| * | ? | NC_002947 | 181660 = | NA (NA) | 4 (0.180) +55 bp |
3/178 | 3.5 | 23.6% | intergenic (+126/‑7) | PP_23SB/PP_r01 | 23S ribosomal RNA/5S ribosomal RNA |
| ? | NC_002947 | 181794 = | 21 (0.580) | intergenic (+8/‑98) | PP_r01/PP_5SB | 5S ribosomal RNA/5S ribosomal RNA | |||||
| * | ? | NC_002947 | = 4682447 | 0 (0.000) | 3 (0.130) +53 bp |
3/182 | 3.6 | 31.1% | coding (737/1431 nt) | mltD | membrane‑bound lytic murein transglycosylase D |
| ? | NC_002947 | = 4682550 | 21 (0.580) | coding (840/1431 nt) | mltD | membrane‑bound lytic murein transglycosylase D | |||||
| * | ? | NC_002947 | = 2957080 | 33 (0.910) | 7 (0.200) | 6/278 | 3.8 | 19.8% | intergenic (+35/‑161) | PP_2588/PP_2589 | class III aminotransferase/aldehyde dehydrogenase family protein |
| ? | NC_002947 | 2957165 = | 25 (0.720) | intergenic (+120/‑76) | PP_2588/PP_2589 | class III aminotransferase/aldehyde dehydrogenase family protein | |||||
| * | ? | NC_002947 | = 401687 | 33 (0.910) | 4 (0.150) +38 bp |
3/212 | 4.1 | 18.8% | intergenic (+214/+215) | PP_0334/PP_0335 | transposase/glutathione S‑transferase family protein |
| ? | NC_002947 | = 5033230 | 14 (0.390) | intergenic (+395/‑15) | PP_4435/PP_4437 | hypothetical protein/transposase | |||||
| * | ? | NC_002947 | = 401687 | 33 (0.910) | 4 (0.150) +38 bp |
3/212 | 4.1 | 19.1% | intergenic (+214/+215) | PP_0334/PP_0335 | transposase/glutathione S‑transferase family protein |
| ? | NC_002947 | = 4486381 | 13 (0.360) | intergenic (+82/‑15) | PP_3978/PP_3979 | hypothetical protein/transposase | |||||
| * | ? | NC_002947 | = 401687 | 33 (0.910) | 4 (0.150) +38 bp |
3/212 | 4.1 | 14.3% | intergenic (+214/+215) | PP_0334/PP_0335 | transposase/glutathione S‑transferase family protein |
| ? | NC_002947 | 4476266 = | 32 (0.880) | intergenic (‑15/‑161) | PP_3966/PP_3967 | transposase/MutT/nudix family protein | |||||
| * | ? | NC_002947 | = 401687 | 33 (0.910) | 4 (0.150) +38 bp |
3/212 | 4.1 | 19.4% | intergenic (+214/+215) | PP_0334/PP_0335 | transposase/glutathione S‑transferase family protein |
| ? | NC_002947 | = 3969351 | 12 (0.330) | intergenic (+300/‑15) | PP_3498/PP_3499 | transposase/transposase | |||||
| * | ? | NC_002947 | = 6027913 | 43 (1.190) | 4 (0.130) | 4/246 | 4.2 | 9.2% | intergenic (‑57/+54) | PP_5277/kauB | MFS transporter/4‑guanidinobutyraldehyde dehydrogenase |
| ? | NC_002947 | = 6027928 | 42 (1.360) | intergenic (‑72/+39) | PP_5277/kauB | MFS transporter/4‑guanidinobutyraldehyde dehydrogenase | |||||