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 | ||
| * | CP009273 | 2,170,734 | 0 | G | T | 32.6% | 68.3 / 40.0 | 98 | intergenic (‑51/+257) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| * | CP009273 | 2,178,908 | 0 | T | G | 30.8% | 168.4 / 22.5 | 91 | intergenic (‑128/+95) | thiM/rcnR | hydoxyethylthiazole kinase/transcriptional repressor of rcnA |
| * | CP009273 | 4,402,598 | 0 | C | G | 26.0% | 183.3 / 11.6 | 75 | S132C (TCT→TGT) | yjfM | DUF1190 family protein |
| * | CP009273 | 4,402,608 | 0 | G | T | 25.0% | 155.3 / 12.0 | 80 | L135F (TTG→TTT) | yjfM | DUF1190 family protein |
| * | CP009273 | 838,652 | 0 | T | G | 24.8% | 195.0 / 10.9 | 101 | F289V (TTT→GTT) | rlmF | 23S rRNA m(6)A1618 methyltransferase, SAM‑dependent |
| * | CP009273 | 838,672 | 0 | G | T | 24.3% | 199.5 / 19.6 | 107 | M295I (ATG→ATT) | rlmF | 23S rRNA m(6)A1618 methyltransferase, SAM‑dependent |
| * | CP009273 | 4,402,596 | 0 | T | G | 22.7% | 162.1 / 18.1 | 75 | V131V (GTT→GTG) | yjfM | DUF1190 family protein |
| * | CP009273 | 838,675 | 0 | C | A | 22.2% | 209.2 / 15.2 | 99 | N296K (AAC→AAA) | rlmF | 23S rRNA m(6)A1618 methyltransferase, SAM‑dependent |
| * | CP009273 | 2,404,729 | 0 | C | A | 20.2% | 207.2 / 21.9 | 104 | V35F (GTC→TTC) | yfbS | putative transporter |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | = 4532507 | 45 (0.380) | 20 (0.180) | 14/250 | 4.1 | 24.2% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | = 4532803 | 83 (0.750) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | CP009273 | 4532499 = | 46 (0.390) | 14 (0.130) | 11/250 | 5.0 | 18.1% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | 4532813 = | 84 (0.760) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | CP009273 | = 1203261 | 126 (1.060) | 8 (0.080) | 5/236 | 7.1 | 8.1% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | = 1205058 | 71 (0.680) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | = 228292 | 158 (1.330) | 3 (0.030) | 3/258 | 8.8 | 1.6% | coding (684/801 nt) | yafD | endo/exonuclease/phosphatase family protein |
| ? | CP009273 | 277313 = | 206 (1.800) | coding (382/1155 nt) | yagA | CP4‑6 prophage; putative DNA‑binding transcriptional regulator | |||||
| * | ? | CP009273 | = 686593 | 84 (0.710) | 3 (0.030) | 3/262 | 8.9 | 3.0% | coding (648/879 nt) | ybeX | putative ion transport |
| ? | CP009273 | = 686796 | 115 (0.990) | coding (445/879 nt) | ybeX | putative ion transport | |||||
| * | ? | CP009273 | 3839946 = | 99 (0.830) | 3 (0.030) | 3/264 | 9.0 | 3.0% | coding (582/1392 nt) | uhpT | hexose phosphate transporter |
| ? | CP009273 | 4497394 = | NA (NA) | noncoding (1103/1221 nt) | IS30 | repeat region | |||||
| * | ? | CP009273 | = 1392101 | 91 (0.770) | 5 (0.040) | 3/266 | 9.0 | 5.2% | coding (779/951 nt) | uspE | stress‑induced protein |
| ? | CP009273 | 1392105 = | 92 (0.780) | coding (775/951 nt) | uspE | stress‑induced protein | |||||
| * | ? | CP009273 | 270338 = | NA (NA) | 3 (0.030) | 3/266 | 9.0 | NA | noncoding (133/335 nt) | IS911 | repeat region |
| ? | CP009273 | = 270439 | NA (NA) | noncoding (234/335 nt) | IS911 | repeat region | |||||
| * | ? | CP009273 | = 223718 | NA (NA) | 3 (0.030) | 3/266 | 9.0 | NA | noncoding (1473/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | CP009273 | 223724 = | NA (NA) | noncoding (1479/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | CP009273 | = 3001327 | 122 (1.030) | 3 (0.030) | 3/268 | 9.1 | 2.4% | coding (459/1197 nt) | ygeX | 2,3‑diaminopropionate ammonia lyase, PLP‑dependent |
| ? | CP009273 | 3001331 = | 126 (1.060) | coding (463/1197 nt) | ygeX | 2,3‑diaminopropionate ammonia lyase, PLP‑dependent | |||||