mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.32.0b
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | position | mutation | freq | annotation | gene | description |
| RA | 468,144 | Δ1 bp | 27.8% | coding (91/339 nt) | glnK → | nitrogen assimilation regulatory protein for GlnL, GlnE, and AmtB |
| JC JC | 542,271 | IS5 (–) +4 bp | 42.9% | coding (136‑139/1668 nt) | fdrA → | putative NAD(P)‑binding acyl‑CoA synthetase |
| RA | 894,431 | Δ1 bp | 13.8% | coding (458/1128 nt) | rlmC → | 23S rRNA m(5)U747 methyltransferase, SAM‑dependent |
| RA | 1,402,027 | A→G | 17.4% | L9P (CTG→CCG) | ydaM ← | diguanylate cyclase, csgD regulator |
| RA | 1,909,455 | G→A | 38.8% | Q113* (CAG→TAG) | proQ ← | RNA chaperone, putative ProP translation regulator |
| JC JC | 2,400,257 | IS5 (+) +4 bp | 63.6% | intergenic (‑137/‑780) | lrhA ← / → alaA | transcriptional repressor of flagellar, motility and chemotaxis genes/valine‑pyruvate aminotransferase 2 |
| JC | 2,420,337 | Δ120 bp | 88.2% | intergenic (‑70/+32) | hisJ ← / ← argT | histidine/lysine/arginine/ornithine transporter subunit/lysine/arginine/ornithine transporter subunit |
| RA | 2,719,426 | T→C | 27.4% | intergenic (‑321/+2) | kgtP ← / ← rrfG | alpha‑ketoglutarate transporter/5S ribosomal RNA of rrnG operon |
| RA | 2,787,133 | A→G | 21.0% | D347G (GAC→GGC) | gabT → | 4‑aminobutyrate aminotransferase, PLP‑dependent |
| RA | 2,985,002 | G→T | 100% | D126Y (GAT→TAT) | ygeG → | SycD‑like chaperone family TPR‑repeat‑containing protein |
| JC JC | 3,178,254 | IS5 (+) +4 bp | 55.6% | coding (56‑59/291 nt) | yqiC → | BMFP family putative fusogenic protein |
| RA | 4,089,622 | A→G | 11.5% | W278R (TGG→CGG) | rhaT ← | L‑rhamnose:proton symporter |
| RA | 4,390,190 | G→C | 25.0% | G29A (GGT→GCT) | hfq → | global sRNA chaperone; HF‑I, host factor for RNA phage Q beta replication |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | = 287112 | NA (NA) | 9 (0.500) | 9/270 | NT | 33.3% | noncoding (1/768 nt) | IS1 | repeat region |
| ? | CP009273 | = 2269346 | 18 (1.000) | coding (595/1026 nt) | yejE | microcin C transporter YejABEF, permease subunit; ABC family | |||||
| * | ? | CP009273 | 360104 = | NA (NA) | 39 (2.160) | 28/270 | NT | NA | intergenic (‑38/+557) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor |
| ? | CP009273 | = 360286 | NA (NA) | intergenic (‑220/+375) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor | |||||
| * | ? | CP009273 | 454243 = | 6 (0.330) | 10 (0.570) | 8/264 | NT | 63.0% | intergenic (+87/‑101) | clpX/lon | ATPase and specificity subunit of ClpX‑ClpP ATP‑dependent serine protease/DNA‑binding ATP‑dependent protease La |
| ? | CP009273 | 603467 = | NA (NA) | intergenic (+23/‑54) | hokE/insL1 | toxic polypeptide, small/IS186 transposase | |||||
| * | ? | CP009273 | = 454255 | 5 (0.280) | 6 (0.340) | 6/262 | NT | 55.3% | intergenic (+99/‑89) | clpX/lon | ATPase and specificity subunit of ClpX‑ClpP ATP‑dependent serine protease/DNA‑binding ATP‑dependent protease La |
| ? | CP009273 | = 604803 | NA (NA) | intergenic (+170/+112) | insL1/entD | IS186 transposase/phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex | |||||
| * | ? | CP009273 | = 1391495 | NA (NA) | 6 (0.330) | 6/270 | NT | 42.9% | intergenic (+146/‑127) | insH1/ynaJ | IS5 transposase and trans‑activator/DUF2534 family putative inner membrane protein |
| ? | CP009273 | = 1972751 | 8 (0.440) | intergenic (‑297/‑483) | flhD/uspC | flagellar class II regulon transcriptional activator, with FlhC/universal stress protein | |||||
| * | ? | CP009273 | 1972748 = | 8 (0.450) | 4 (0.220) | 4/268 | NT | 33.3% | intergenic (‑294/‑486) | flhD/uspC | flagellar class II regulon transcriptional activator, with FlhC/universal stress protein |
| ? | CP009273 | = 2283592 | NA (NA) | noncoding (1/1195 nt) | IS5 | repeat region | |||||
| * | ? | CP009273 | 2269338 = | 18 (1.000) | 11 (0.610) | 11/270 | NT | 37.9% | coding (587/1026 nt) | yejE | microcin C transporter YejABEF, permease subunit; ABC family |
| ? | CP009273 | = 3577555 | NA (NA) | intergenic (+15/‑1) | insB1/yrhA | IS1 transposase B/pseudogene, interrupted by IS1E | |||||
| * | ? | CP009273 | 4532499 = | 9 (0.500) | 5 (0.300) | 5/252 | NT | 36.5% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | 4532813 = | 9 (0.540) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | CP009273 | = 4532507 | 10 (0.560) | 7 (0.420) | 7/252 | NT | 43.3% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | = 4532803 | 9 (0.540) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||