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 | 3,875,521 | 0 | T | C | 34.7% | 79.8 / 37.6 | 73 | A28A (GCT→GCC) | yidX | putative lipoprotein |
| * | NC_000913 | 3,875,522 | 0 | C | G | 28.8% | 100.1 / 35.9 | 73 | L29V (CTG→GTG) | yidX | putative lipoprotein |
| * | NC_000913 | 3,875,524 | 0 | G | C | 25.7% | 119.8 / 32.4 | 74 | L29L (CTG→CTC) | yidX | putative lipoprotein |
| * | NC_000913 | 3,875,529 | 0 | C | G | 25.6% | 141.3 / 35.2 | 79 | S31C (TCC→TGC) | yidX | putative lipoprotein |
| * | NC_000913 | 4,296,268 | 0 | T | C | 23.6% | 94.7 / 20.6 | 55 | intergenic (+474/+168) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 3,875,531 | 0 | C | T | 23.1% | 136.2 / 23.2 | 79 | H32Y (CAT→TAT) | yidX | putative lipoprotein |
| * | NC_000913 | 3,875,527 | 0 | T | C | 22.7% | 134.5 / 18.3 | 77 | V30V (GTT→GTC) | yidX | putative lipoprotein |
| * | NC_000913 | 3,875,525 | 0 | G | T | 22.2% | 130.4 / 17.1 | 74 | V30F (GTT→TTT) | yidX | putative lipoprotein |
| * | NC_000913 | 3,875,532 | 0 | A | T | 22.1% | 152.1 / 24.5 | 79 | H32L (CAT→CTT) | yidX | putative lipoprotein |
| * | NC_000913 | 4,296,191 | 0 | A | C | 21.9% | 40.7 / 13.7 | 42 | intergenic (+397/+245) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Marginal new junction evidence (lowest skew 10 of 17 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 52 (0.590) | 16 (0.190) | 14/534 | 4.7 | 24.2% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 51 (0.620) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 3681989 | 101 (1.180) | 9 (0.100) +GTCA |
3/544 | 9.3 | 8.2% | intergenic (‑49/+172) | yhjJ/dctA | putative periplasmic M16 family chaperone/C4‑dicarboxylic acid, orotate and citrate transporter |
| ? | NC_000913 | 3681990 = | 102 (1.160) | intergenic (‑50/+171) | yhjJ/dctA | putative periplasmic M16 family chaperone/C4‑dicarboxylic acid, orotate and citrate transporter | |||||
| * | ? | NC_000913 | = 459380 | 93 (1.060) | 3 (0.040) | 3/544 | 9.3 | 2.8% | coding (493/2355 nt) | lon | DNA‑binding ATP‑dependent protease La |
| ? | NC_000913 | = 459622 | 117 (1.390) | coding (735/2355 nt) | lon | DNA‑binding ATP‑dependent protease La | |||||
| * | ? | NC_000913 | = 4542690 | 45 (0.510) | 5 (0.060) | 3/548 | 9.4 | 9.0% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4542986 | 58 (0.680) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | = 4500065 | 118 (1.350) | 3 (0.040) | 3/554 | 9.4 | 2.5% | pseudogene (470/942 nt) | yjgX | pseudogene fragment |
| ? | NC_000913 | = 4500235 | 119 (1.390) | pseudogene (300/942 nt) | yjgX | pseudogene fragment | |||||
| * | ? | NC_000913 | 3398953 = | 89 (1.020) | 3 (0.030) | 3/556 | 9.4 | 3.3% | coding (1026/1104 nt) | mreC | cell wall structural complex MreBCD transmembrane component MreC |
| ? | NC_000913 | = 3398949 | 86 (1.000) | coding (1030/1104 nt) | mreC | cell wall structural complex MreBCD transmembrane component MreC | |||||
| * | ? | NC_000913 | 2127082 = | 48 (0.550) | 3 (0.040) | 3/552 | 9.4 | 5.2% | coding (109/966 nt) | wcaG | bifunctional GDP‑fucose synthetase: GDP‑4‑dehydro‑6‑deoxy‑D‑mannose epimerase/ GDP‑4‑dehydro‑6‑L‑deoxygalactose reductase |
| ? | NC_000913 | = 2127385 | 62 (0.730) | coding (930/1122 nt) | gmd | GDP‑D‑mannose dehydratase, NAD(P)‑binding | |||||
| * | ? | NC_000913 | = 1816816 | 85 (0.970) | 3 (0.040) | 3/554 | 9.4 | 3.4% | coding (320/750 nt) | chbG | chito‑oligosaccharide deacetylase |
| ? | NC_000913 | = 1817671 | 89 (1.040) | coding (830/1353 nt) | chbF | phospho‑chitobiase; general 6‑phospho‑beta‑glucosidase activity | |||||
| * | ? | NC_000913 | 1532249 = | 110 (1.260) | 3 (0.040) | 3/552 | 9.4 | 2.7% | coding (434/1137 nt) | ydcC | H repeat‑associated putative transposase |
| ? | NC_000913 | 3621126 = | NA (NA) | coding (1935/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | = 381689 | NA (NA) | 3 (0.040) | 3/548 | 9.4 | NA | noncoding (430/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 381743 | NA (NA) | noncoding (484/1331 nt) | IS2 | repeat region | |||||