mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.32.0b
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 | ||
| * | CP009273 | 1,206,880 | 0 | T | C | 53.1% | 6.0 / 111.0 | 97 | pseudogene (12/165 nt) | icdC | pseudogene, isocitrate dehydrogenase C‑terminal gene fragment; idcC' is a 54 codon 3' gene fragment created during e14 prophage insertion |
| * | CP009273 | 1,206,892 | 0 | T | C | 48.4% | 39.9 / 128.2 | 94 | pseudogene (24/165 nt) | icdC | pseudogene, isocitrate dehydrogenase C‑terminal gene fragment; idcC' is a 54 codon 3' gene fragment created during e14 prophage insertion |
| * | CP009273 | 1,206,905 | 0 | C | T | 44.6% | 77.5 / 111.5 | 93 | pseudogene (37/165 nt) | icdC | pseudogene, isocitrate dehydrogenase C‑terminal gene fragment; idcC' is a 54 codon 3' gene fragment created during e14 prophage insertion |
| * | CP009273 | 1,206,907 | 0 | G | A | 43.2% | 82.0 / 109.8 | 95 | pseudogene (39/165 nt) | icdC | pseudogene, isocitrate dehydrogenase C‑terminal gene fragment; idcC' is a 54 codon 3' gene fragment created during e14 prophage insertion |
| * | CP009273 | 1,206,940 | 0 | C | G | 36.6% | 144.9 / 84.6 | 82 | pseudogene (72/165 nt) | icdC | pseudogene, isocitrate dehydrogenase C‑terminal gene fragment; idcC' is a 54 codon 3' gene fragment created during e14 prophage insertion |
| * | CP009273 | 1,206,943 | 0 | G | A | 36.2% | 107.4 / 69.2 | 80 | pseudogene (75/165 nt) | icdC | pseudogene, isocitrate dehydrogenase C‑terminal gene fragment; idcC' is a 54 codon 3' gene fragment created during e14 prophage insertion |
| * | CP009273 | 1,206,937 | 0 | T | C | 35.4% | 109.4 / 72.2 | 83 | pseudogene (69/165 nt) | icdC | pseudogene, isocitrate dehydrogenase C‑terminal gene fragment; idcC' is a 54 codon 3' gene fragment created during e14 prophage insertion |
| * | CP009273 | 1,206,952 | 0 | T | C | 32.0% | 128.8 / 56.8 | 78 | pseudogene (84/165 nt) | icdC | pseudogene, isocitrate dehydrogenase C‑terminal gene fragment; idcC' is a 54 codon 3' gene fragment created during e14 prophage insertion |
| * | CP009273 | 3,774,512 | 0 | A | G | 27.1% | 90.0 / 13.6 | 59 | intergenic (+135/‑63) | lldD/trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| * | CP009273 | 1,206,964 | 0 | A | G | 25.4% | 128.1 / 40.9 | 71 | pseudogene (96/165 nt) | icdC | pseudogene, isocitrate dehydrogenase C‑terminal gene fragment; idcC' is a 54 codon 3' gene fragment created during e14 prophage insertion |
| * | CP009273 | 3,596,061 | 0 | T | C | 24.3% | 130.5 / 10.3 | 70 | Q16R (CAG→CGG) | ftsE | putative ABC superfamily transporter ATP‑binding subunit |
| Marginal new junction evidence (lowest skew 10 of 47 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | = 3938338 | NA (NA) | 13 (0.200) | 7/282 | 6.1 | 27.9% | noncoding (1275/2904 nt) | rrlC | 23S ribosomal RNA of rrnC operon |
| ? | CP009273 | = 4032171 | 35 (0.510) | noncoding (1293/2905 nt) | rrlA | 23S ribosomal RNA of rrnA operon | |||||
| * | ? | CP009273 | = 1457702 | 134 (1.970) | 9 (0.140) | 7/280 | 6.1 | 7.1% | intergenic (+7/‑94) | paaK/paaX | phenylacetyl‑CoA ligase/transcriptional repressor of phenylacetic acid degradation paa operon, phenylacetyl‑CoA inducer |
| ? | CP009273 | = 1457739 | 109 (1.680) | intergenic (+44/‑57) | paaK/paaX | phenylacetyl‑CoA ligase/transcriptional repressor of phenylacetic acid degradation paa operon, phenylacetyl‑CoA inducer | |||||
| * | ? | CP009273 | 2721250 = | NA (NA) | 13 (0.200) | 6/282 | 6.5 | NA | noncoding (1294/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| ? | CP009273 | 2721269 = | NA (NA) | noncoding (1275/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | CP009273 | = 223539 | 58 (0.850) | 13 (0.200) | 6/282 | 6.5 | 18.9% | noncoding (1294/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | CP009273 | 2721269 = | NA (NA) | noncoding (1275/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | CP009273 | = 221577 | NA (NA) | 8 (0.120) | 6/282 | 6.5 | NA | noncoding (1320/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | CP009273 | = 221679 | NA (NA) | noncoding (1422/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | CP009273 | = 16507 | NA (NA) | 6 (0.090) | 6/278 | 6.5 | NA | noncoding (1121/1345 nt) | IS186 | repeat region |
| ? | CP009273 | = 16511 | NA (NA) | noncoding (1125/1345 nt) | IS186 | repeat region | |||||
| * | ? | CP009273 | 776825 = | 69 (1.010) | 10 (0.150) +G |
6/292 | 6.7 | 14.8% | noncoding (1/76 nt) | lysZ | tRNA‑Lys |
| ? | CP009273 | = 2514488 | 47 (0.690) | noncoding (216/1345 nt) | IS186 | repeat region | |||||
| * | ? | CP009273 | = 377432 | NA (NA) | 6 (0.090) | 5/284 | 7.0 | NA | coding (303/906 nt) | insD1 | IS2 transposase TnpB |
| ? | CP009273 | = 377507 | NA (NA) | coding (378/906 nt) | insD1 | IS2 transposase TnpB | |||||
| * | ? | CP009273 | = 270406 | NA (NA) | 6 (0.090) | 5/286 | 7.1 | NA | noncoding (201/335 nt) | IS911 | repeat region |
| ? | CP009273 | = 270438 | NA (NA) | noncoding (233/335 nt) | IS911 | repeat region | |||||
| * | ? | CP009273 | 777033 = | 91 (1.340) | 23 (0.340) +G |
5/292 | 7.2 | 25.1% | noncoding (1/76 nt) | lysQ | tRNA‑Lys |
| ? | CP009273 | = 2514488 | 47 (0.690) | noncoding (216/1345 nt) | IS186 | repeat region | |||||