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 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | BN000925 | 31,941 | 0 | C | G | 64.4% | 294.3 / inf | 282 | P89A (CCT→GCT) | upf31.7 | hypothetical protein |
| * | BN000925 | 31,939 | 0 | C | G | 64.2% | 279.5 / inf | 282 | P88R (CCG→CGG) ‡ | upf31.7 | hypothetical protein |
| * | BN000925 | 31,940 | 0 | G | C | 64.2% | 278.0 / inf | 282 | P88P (CCG→CCC) ‡ | upf31.7 | hypothetical protein |
| * | BN000925 | 8,772 | 0 | A | C | 60.7% | 697.5 / inf | 304 | coding (1371/3006 nt) | tnpA | Tn1 transposase |
| * | BN000925 | 8,771 | 0 | C | G | 60.6% | 220.3 / inf | 304 | A457G (GCA→GGA) ‡ | tnpA | Tn1 transposase |
| * | BN000925 | 8,770 | 0 | G | C | 60.5% | 227.5 / inf | 304 | A457P (GCA→CCA) ‡ | tnpA | Tn1 transposase |
| * | NC_000913 | 4,168,221 | 0 | T | C | 45.3% | 144.1 / 233.2 | 161 | intergenic (+21/‑151) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| * | NC_000913 | 4,168,215 | 0 | A | T | 44.0% | 150.8 / 254.8 | 159 | intergenic (+15/‑157) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| * | BN000925 | 8,767 | 1 | . | C | 39.1% | 162.4 / inf | 304 | coding (1366/3006 nt) | tnpA | Tn1 transposase |
| * | BN000925 | 31,938 | 0 | C | . | 36.0% | 675.5 / inf | 279 | coding (262/420 nt) | upf31.7 | hypothetical protein |
| * | BN000925 | 31,941 | 1 | . | G | 35.5% | 264.0 / inf | 282 | coding (265/420 nt) | upf31.7 | hypothetical protein |
| * | NC_000913 | 4,168,472 | 0 | G | A | 27.7% | 185.8 / 100.5 | 119 | intergenic (+25/‑169) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 4,168,476 | 0 | A | G | 27.6% | 202.5 / 88.1 | 116 | intergenic (+29/‑165) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 4,168,475 | 0 | G | T | 26.7% | 219.8 / 104.3 | 116 | intergenic (+28/‑166) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| Marginal new junction evidence (lowest skew 10 of 21 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 381292 = | NA (NA) | 8 (0.130) | 8/414 | 4.7 | NA | noncoding (33/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 381312 = | NA (NA) | noncoding (53/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 4542690 | 69 (1.050) | 7 (0.110) | 6/414 | 5.4 | 10.0% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 60 (0.960) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 4542682 = | 79 (1.200) | 6 (0.100) | 5/414 | 5.8 | 8.1% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 60 (0.960) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 2765420 = | 73 (1.110) | 3 (0.060) | 3/344 | 6.0 | 5.0% | intergenic (‑267/+93) | abpA/yfjM | CP4‑57 prophage; anti‑bacteriophage protein/CP4‑57 prophage; protein YfjM |
| ? | NC_000913 | = 2765411 | 57 (1.090) | intergenic (‑258/+102) | abpA/yfjM | CP4‑57 prophage; anti‑bacteriophage protein/CP4‑57 prophage; protein YfjM | |||||
| * | ? | NC_000913 | = 2713829 | 63 (0.960) | 4 (0.060) | 4/410 | 6.2 | 7.2% | coding (934/1335 nt) | srmB | ATP‑dependent RNA helicase SrmB |
| ? | NC_000913 | = 2713908 | 44 (0.710) | coding (1013/1335 nt) | srmB | ATP‑dependent RNA helicase SrmB | |||||
| * | ? | NC_000913 | 2416930 = | 76 (1.160) | 3 (0.050) | 3/410 | 6.7 | 3.8% | intergenic (+39/‑151) | pta/yfcC | phosphate acetyltransferase/putative transporter YfcC |
| ? | NC_000913 | 2416957 = | 81 (1.300) | intergenic (+66/‑124) | pta/yfcC | phosphate acetyltransferase/putative transporter YfcC | |||||
| * | ? | NC_000913 | 4316757 = | 40 (0.610) | 3 (0.050) | 3/418 | 6.8 | 7.4% | coding (462/1137 nt) | phnM | RPnTP hydrolase |
| ? | NC_000913 | 4316815 = | 36 (0.570) | coding (404/1137 nt) | phnM | RPnTP hydrolase | |||||
| * | ? | NC_000913 | = 2839320 | 65 (0.990) | 3 (0.050) | 3/414 | 6.8 | 4.5% | intergenic (‑56/‑204) | ascG/ascF | DNA‑binding transcriptional repressor AscG/beta‑glucoside specific PTS enzyme IIBC component |
| ? | NC_000913 | = 2839326 | 64 (1.020) | intergenic (‑62/‑198) | ascG/ascF | DNA‑binding transcriptional repressor AscG/beta‑glucoside specific PTS enzyme IIBC component | |||||
| * | ? | NC_000913 | 1070548 = | 53 (0.810) | 3 (0.050) | 3/418 | 6.8 | 5.9% | coding (408/591 nt) | rutE | putative malonic semialdehyde reductase |
| ? | NC_000913 | 1070576 = | 45 (0.710) | coding (380/591 nt) | rutE | putative malonic semialdehyde reductase | |||||
| * | ? | NC_000913 | 1045201 = | 60 (0.920) | 3 (0.050) | 3/414 | 6.8 | 4.3% | coding (603/1140 nt) | gfcE | putative exopolysaccharide export lipoprotein GfcE |
| ? | NC_000913 | 1045310 = | 75 (1.190) | coding (494/1140 nt) | gfcE | putative exopolysaccharide export lipoprotein GfcE | |||||