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 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,296,060 | 0 | C | T | 26.0% | 94.2 / 38.9 | 77 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Marginal new junction evidence (lowest skew 10 of 49 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1207805 | 47 (0.780) | 11 (0.200) | 11/252 | 4.6 | 20.2% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 45 (0.840) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 4295835 = | NA (NA) | 11 (0.190) | 6/276 | 7.3 | 24.4% | noncoding (1/600 nt) | RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites | RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites |
| ? | NC_000913 | 4295924 = | 34 (0.580) | noncoding (90/600 nt) | RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites | RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites | |||||
| * | ? | NC_000913 | 274620 = | NA (NA) | 6 (0.110) | 5/266 | 7.6 | NA | noncoding (530/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274663 = | NA (NA) | noncoding (487/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 4178481 | 59 (0.970) | 5 (0.090) | 5/270 | 7.7 | 8.4% | coding (35/429 nt) | rplK | 50S ribosomal subunit protein L11 |
| ? | NC_000913 | = 4178484 | 53 (0.920) | coding (38/429 nt) | rplK | 50S ribosomal subunit protein L11 | |||||
| * | ? | NC_000913 | = 3941885 | 8 (0.130) | 7 (0.120) | 5/280 | 8.0 | 47.0% | noncoding (78/1542 nt) | rrsC | 16S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 4035620 | NA (NA) | noncoding (90/1542 nt) | rrsA | 16S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | = 3941883 | NA (NA) | 7 (0.120) | 5/280 | 8.0 | 29.5% | noncoding (76/1542 nt) | rrsC | 16S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 4208238 | 17 (0.280) | noncoding (92/1542 nt) | rrsE | 16S ribosomal RNA of rrnE operon | |||||
| * | ? | NC_000913 | 1299667 = | NA (NA) | 5 (0.080) | 5/280 | 8.0 | NA | noncoding (169/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 1299703 = | NA (NA) | noncoding (205/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 223862 | 7 (0.120) | 7 (0.120) | 5/280 | 8.0 | 50.4% | noncoding (92/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 3428687 = | NA (NA) | noncoding (76/1542 nt) | rrsD | 16S ribosomal RNA of rrnD operon | |||||
| * | ? | NC_000913 | = 565828 | 64 (1.060) | 7 (0.120) | 5/284 | 8.1 | 9.9% | coding (151/1164 nt) | intD | DLP12 prophage; putative phage integrase |
| ? | NC_000913 | = 575785 | NA (NA) | noncoding (1/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 4254000 | NA (NA) | 4 (0.070) | 4/270 | 8.3 | NA | noncoding (100/130 nt) | RIP317 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | RIP317 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site |
| ? | NC_000913 | = 4254030 | NA (NA) | noncoding (130/130 nt) | RIP317 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | RIP317 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | |||||