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 | 4,296,268 | 0 | T | C | 28.1% | 84.7 / 33.1 | 59 | intergenic (+474/+168) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 4,296,190 | 0 | A | G | 24.4% | 47.8 / 16.5 | 42 | intergenic (+396/+246) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 3,875,532 | 0 | A | T | 24.3% | 143.0 / 12.9 | 75 | H32L (CAT→CTT) | yidX | putative lipoprotein |
| * | NC_000913 | 4,296,191 | 0 | A | C | 23.8% | 43.7 / 16.1 | 42 | intergenic (+397/+245) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Marginal new junction evidence (lowest skew 10 of 22 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 279163 = | NA (NA) | 66 (0.500) | 5/548 | 12.8 | 37.3% | noncoding (768/768 nt) | IS1 | repeat region |
| ? | NC_000913 | = 2760086 | 111 (0.850) | coding (1102/1410 nt) | yfjI | CP4‑57 prophage; uncharacterized protein | |||||
| * | ? | NC_000913 | = 4542690 | 90 (0.690) | 4 (0.030) | 4/530 | 13.2 | 4.1% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4542986 | 101 (0.800) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | 4542682 = | 84 (0.640) | 4 (0.030) | 4/530 | 13.2 | 4.2% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | 4542996 = | 101 (0.800) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | = 4373275 | NA (NA) | 4 (0.030) | 4/536 | 13.3 | 2.9% | noncoding (79/99 nt) | RIP328 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP328 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913 | 4374582 = | 134 (1.040) | noncoding (85/99 nt) | RIP329 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP329 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | 2731080 = | 165 (1.260) | 4 (0.030) +ACAGCTT |
4/534 | 13.3 | 2.8% | noncoding (78/1542 nt) | rrsG | 16S ribosomal RNA of rrnG operon |
| ? | NC_000913 | = 3941890 | 115 (0.880) | noncoding (83/1542 nt) | rrsC | 16S ribosomal RNA of rrnC operon | |||||
| * | ? | NC_000913 | 2731080 = | 165 (1.260) | 5 (0.040) +ACAGCTT |
4/534 | 13.3 | 3.6% | noncoding (78/1542 nt) | rrsG | 16S ribosomal RNA of rrnG operon |
| ? | NC_000913 | 3428680 = | 106 (0.810) | noncoding (83/1542 nt) | rrsD | 16S ribosomal RNA of rrnD operon | |||||
| * | ? | NC_000913 | = 2412910 | 122 (0.930) | 4 (0.030) | 4/536 | 13.3 | 3.3% | coding (223/456 nt) | yfbV | UPF0208 family inner membrane protein |
| ? | NC_000913 | = 2412914 | 112 (0.870) | coding (219/456 nt) | yfbV | UPF0208 family inner membrane protein | |||||
| * | ? | NC_000913 | = 2713829 | 133 (1.010) | 3 (0.020) | 3/526 | 13.9 | 2.4% | coding (934/1335 nt) | srmB | ATP‑dependent RNA helicase |
| ? | NC_000913 | = 2713908 | 114 (0.910) | coding (1013/1335 nt) | srmB | ATP‑dependent RNA helicase | |||||
| * | ? | NC_000913 | = 2642691 | 154 (1.210) | 10 (0.080) +CTTAT |
3/522 | 13.9 | 6.0% | coding (154/1014 nt) | rodZ | MreB assembly cytoskeletal protein |
| ? | NC_000913 | 2642692 = | 158 (1.200) | coding (153/1014 nt) | rodZ | MreB assembly cytoskeletal protein | |||||
| * | ? | NC_000913 | = 3941890 | 115 (0.880) | 4 (0.030) | 3/532 | 14.0 | 3.5% | noncoding (83/1542 nt) | rrsC | 16S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 3941892 | 112 (0.880) | noncoding (85/1542 nt) | rrsC | 16S ribosomal RNA of rrnC operon | |||||