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 (highest frequency 20 of 35 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 71,079 | 0 | C | T | 74.8% | 2548.4 / inf | 1366 | R231R (CGC→CGT) | araC | DNA‑binding transcriptional dual regulator AraC |
| * | NC_000913 | 71,082 | 0 | T | C | 74.6% | 2483.1 / inf | 1338 | I232I (ATT→ATC) | araC | DNA‑binding transcriptional dual regulator AraC |
| * | NC_000913 | 71,085 | 0 | T | C | 73.9% | 2367.6 / inf | 1313 | S233S (AGT→AGC) | araC | DNA‑binding transcriptional dual regulator AraC |
| * | NC_000913 | 566,326 | 0 | T | C | 73.4% | 1141.8 / inf | 651 | pseudogene (36/264 nt) | exoD | DLP12 prophage; putative exonuclease ExoD |
| * | NC_000913 | 566,332 | 0 | T | G | 70.6% | 1139.6 / inf | 595 | pseudogene (30/264 nt) | exoD | DLP12 prophage; putative exonuclease ExoD |
| * | NC_000913 | 71,166 | 0 | T | C | 69.8% | 1719.9 / inf | 1153 | Y260Y (TAT→TAC) | araC | DNA‑binding transcriptional dual regulator AraC |
| * | NC_000913 | 71,175 | 0 | A | G | 66.9% | 1317.9 / inf | 1038 | R263R (CGA→CGG) | araC | DNA‑binding transcriptional dual regulator AraC |
| * | NC_000913 | 2,137,455 | 0 | A | G | 65.3% | 106.6 / 96.8 | 98 | intergenic (‑212/‑447) | wza/yegH | outer membrane polysaccharide export protein Wza/inner membrane protein YegH |
| * | NC_000913 | 71,214 | 0 | T | C | 60.2% | 586.5 / inf | 793 | F276F (TTT→TTC) | araC | DNA‑binding transcriptional dual regulator AraC |
| * | NC_000913 | 566,356 | 0 | T | C | 55.8% | 171.5 / inf | 401 | pseudogene (6/264 nt) | exoD | DLP12 prophage; putative exonuclease ExoD |
| * | NC_000913 | 2,639,269 | 0 | C | G | 28.8% | 229.7 / 37.8 | 111 | E5D (GAG→GAC) | yfgM | ancillary SecYEG translocon subunit |
| * | NC_000913 | 159,101 | 0 | C | A | 27.6% | 440.5 / 56.2 | 199 | C9F (TGC→TTC) | pcnB | poly(A) polymerase I |
| * | NC_000913 | 361,311 | 0 | C | A | 27.6% | 506.7 / 28.7 | 239 | E184* (GAA→TAA) | lacA | galactoside O‑acetyltransferase |
| * | NC_000913 | 4,412,779 | 0 | T | G | 26.7% | 305.0 / 32.8 | 146 | V131V (GTT→GTG) | yjfM | DUF1190 domain‑containing protein YjfM |
| * | NC_000913 | 4,296,060 | 0 | C | T | 25.5% | 983.1 / inf | 549 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 2,639,262 | 0 | T | G | 25.4% | 217.1 / 32.9 | 110 | N8H (AAC→CAC) | yfgM | ancillary SecYEG translocon subunit |
| * | NC_000913 | 843,196 | 0 | T | G | 25.0% | 227.6 / 14.7 | 117 | F289V (TTT→GTT) | rlmF | 23S rRNA m(6)A1618 methyltransferase |
| * | NC_000913 | 2,639,265 | 0 | C | G | 25.0% | 264.7 / 24.6 | 115 | E7Q (GAA→CAA) | yfgM | ancillary SecYEG translocon subunit |
| * | NC_000913 | 361,320 | 0 | C | A | 24.9% | 575.9 / 42.2 | 245 | V181F (GTT→TTT) | lacA | galactoside O‑acetyltransferase |
| * | NC_000913 | 4,412,781 | 0 | C | G | 24.2% | 377.7 / 41.3 | 154 | S132C (TCT→TGT) | yjfM | DUF1190 domain‑containing protein YjfM |
| Marginal new junction evidence (lowest skew 10 of 553 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 4235756 | 504 (2.630) | 14 (0.080) | 13/274 | 1.4 | 2.8% | intergenic (+349/‑150) | pgi/yjbE | glucose‑6‑phosphate isomerase/uncharacterized protein YjbE |
| ? | NC_000913 | = 4235758 | 506 (2.850) | intergenic (+351/‑148) | pgi/yjbE | glucose‑6‑phosphate isomerase/uncharacterized protein YjbE | |||||
| * | ? | NC_000913 | = 4168373 | 148 (0.770) | 7 (0.070) +66 bp |
5/164 | 1.6 | 4.8% | noncoding (2/76 nt) | gltT | tRNA‑Glu |
| ? | NC_000913 | = 4209753 | 358 (1.870) | intergenic (+65/‑21) | rrsE/gltV | 16S ribosomal RNA/tRNA‑Glu | |||||
| * | ? | NC_000913 | 4168332 = | 189 (0.990) | 15 (0.080) | 10/276 | 1.6 | 8.5% | intergenic (+132/‑40) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| ? | NC_000913 | 4168374 = | 148 (0.830) | noncoding (3/76 nt) | gltT | tRNA‑Glu | |||||
| * | ? | NC_000913 | 2822705 = | 139 (0.720) | 23 (0.150) +28 bp |
8/240 | 1.6 | 12.4% | intergenic (‑66/+3) | recX/recA | RecA inhibitor RecX/DNA recombination/repair protein RecA |
| ? | NC_000913 | = 4171809 | 264 (1.380) | intergenic (+53/‑248) | rrfB/murB | 5S ribosomal RNA/UDP‑N‑acetylenolpyruvoylglucosamine reductase | |||||
| * | ? | NC_000913 | 4319711 = | 646 (3.370) | 8 (0.040) | 8/280 | 1.7 | 1.3% | coding (953/1065 nt) | phnI | carbon‑phosphorus lyase core complex subunit PhnI |
| ? | NC_000913 | 4319835 = | 646 (3.560) | coding (829/1065 nt) | phnI | carbon‑phosphorus lyase core complex subunit PhnI | |||||
| * | ? | NC_000913 | 4339381 = | 320 (1.670) | 8 (0.040) | 7/284 | 1.8 | 2.6% | coding (1141/2268 nt) | adiA | arginine decarboxylase, degradative |
| ? | NC_000913 | 4339413 = | 285 (1.550) | coding (1109/2268 nt) | adiA | arginine decarboxylase, degradative | |||||
| * | ? | NC_000913 | = 4323389 | 683 (3.560) | 10 (0.060) | 7/280 | 1.8 | 1.5% | coding (964/1017 nt) | phnD | phosphonate ABC transporter periplasmic binding protein |
| ? | NC_000913 | = 4323407 | 666 (3.670) | coding (946/1017 nt) | phnD | phosphonate ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | = 4317084 | 585 (3.050) | 12 (0.070) | 7/284 | 1.8 | 2.0% | coding (135/1137 nt) | phnM | RPnTP hydrolase |
| ? | NC_000913 | = 4317119 | 614 (3.340) | coding (100/1137 nt) | phnM | RPnTP hydrolase | |||||
| * | ? | NC_000913 | 4314079 = | 620 (3.230) | 11 (0.060) | 8/288 | 1.8 | 1.8% | coding (212/330 nt) | yjdP | protein YjdP |
| ? | NC_000913 | 4314151 = | 597 (3.200) | coding (284/330 nt) | yjdP | protein YjdP | |||||
| * | ? | NC_000913 | = 4234633 | 410 (2.140) | 10 (0.050) | 8/290 | 1.8 | 2.3% | coding (876/1650 nt) | pgi | glucose‑6‑phosphate isomerase |
| ? | NC_000913 | = 4234666 | 438 (2.330) | coding (909/1650 nt) | pgi | glucose‑6‑phosphate isomerase | |||||