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 |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | position | mutation | freq | annotation | gene | description |
| RA | 104,041 | G→T | 15.1% | intergenic (+80/‑151) | lpxC → / → secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| RA | 148,133 | A→T | 5.1% | F196I (TTT→ATT) | yadL ← | putative fimbrial‑like adhesin protein |
| RA | 161,068 | A→C | 27.2% | intergenic (+47/‑149) | hrpB → / → mrcB | putative ATP‑dependent helicase/fused glycosyl transferase and transpeptidase |
| RA | 235,019 | C→A | 5.6% | V69L (GTA→TTA) | ykfM ← | lethality reduction protein, putative inner membrane protein |
| RA | 353,335 | T→G | 6.6% | intergenic (+170/+167) | codA → / ← cynR | cytosine/isoguanine deaminase/transcriptional activator of cyn operon; autorepressor |
| RA | 418,994 | C→G | 9.8% | L341V (CTG→GTG) | malZ → | maltodextrin glucosidase |
| RA | 445,212 | C→T | 100% | G296S (GGT→AGT) | cyoB ← | cytochrome o ubiquinol oxidase subunit I |
| RA | 1,160,015 | A→C | 8.8% | E155D (GAA→GAC) | nagZ → | beta N‑acetyl‑glucosaminidase |
| RA | 1,207,963 | C→A | 6.2% | intergenic (‑504/+196) | iraM ← / ← ycgX | RpoS stabilzer during Mg starvation, anti‑RssB factor/DUF1398 family protein |
| RA | 1,288,276 | C→A | 100% | V35F (GTT→TTT) | hns ← | global DNA‑binding transcriptional dual regulator H‑NS |
| RA | 1,896,745 | A→C | 10.7% | K147N (AAA→AAC) | manX → | fused mannose‑specific PTS enzymes: IIA component/IIB component |
| RA | 2,170,713 | C→A | 11.6% | intergenic (‑30/+278) | gatY ← / ← fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| RA | 2,170,724 | G→T | 14.6% | intergenic (‑41/+267) | gatY ← / ← fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| RA | 2,170,758 | C→A | 9.1% | intergenic (‑75/+233) | gatY ← / ← fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| RA | 2,632,621 | T→G | 11.1% | N8H (AAC→CAC) | yfgM ← | putative anti‑RcsB factor |
| RA | 2,632,626 | T→G | 6.6% | N6T (AAC→ACC) | yfgM ← | putative anti‑RcsB factor |
| RA | 2,632,650 | T→G | 7.3% | intergenic (‑8/+10) | yfgM ← / ← hisS | putative anti‑RcsB factor/histidyl tRNA synthetase |
| RA | 2,719,426 | T→C | 100% | intergenic (‑321/+2) | kgtP ← / ← rrfG | alpha‑ketoglutarate transporter/5S ribosomal RNA of rrnG operon |
| RA | 2,958,490 | G→T | 5.8% | Q9K (CAA→AAA) | thyA ← | thymidylate synthetase |
| RA | 3,072,806 | A→G | 100% | intergenic (‑117/+197) | cmtB ← / ← tktA | putative mannitol‑specific enzyme IIA component of PTS/transketolase 1, thiamine triphosphate‑binding |
| RA | 3,232,977 | A→T | 9.2% | intergenic (+73/‑326) | alx → / → sstT | putative membrane‑bound redox modulator/sodium:serine/threonine symporter |
| RA | 3,417,135 | G→T | 9.0% | noncoding (12/120 nt) | rrfD ← | 5S ribosomal RNA of rrnD operon |
| RA | 3,602,063 | A→T | 12.8% | intergenic (+54/+48) | zntA → / ← tusA | zinc, cobalt and lead efflux system/mnm(5)‑s(2)U34‑tRNA 2‑thiolation sulfurtransferase |
| RA | 3,602,066 | G→T | 7.4% | intergenic (+57/+45) | zntA → / ← tusA | zinc, cobalt and lead efflux system/mnm(5)‑s(2)U34‑tRNA 2‑thiolation sulfurtransferase |
| RA | 3,822,340 | A→C | 8.9% | Q12H (CAA→CAC) | xanP → | xanthine permease |
| RA | 3,901,867 | T→G | 9.9% | intergenic (‑141/+42) | pstB ← / ← pstA | phosphate transporter subunit/phosphate transporter subunit |
| RA | 3,901,880 | A→C | 6.8% | intergenic (‑154/+29) | pstB ← / ← pstA | phosphate transporter subunit/phosphate transporter subunit |
| RA | 4,173,025 | A→T | 9.7% | Q618L (CAG→CTG) | rpoB → | RNA polymerase, beta subunit |
| JC | 4,173,705 | Δ9 bp | 7.0% | coding (2533‑2541/4029 nt) | rpoB → | RNA polymerase, beta subunit |
| RA | 4,174,687 | T→G | 21.7% | L1172R (CTG→CGG) | rpoB → | RNA polymerase, beta subunit |
| RA | 4,176,502 | T→G | 6.2% | W409G (TGG→GGG) | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,178,209 | C→T | 26.9% | R978C (CGT→TGT) | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,178,501 | G→C | 11.8% | R1075P (CGT→CCT) | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,234,581 | G→T | 6.7% | G141G (GGC→GGA) | malF ← | maltose transporter subunit |
| RA | 4,236,457 | T→G | 7.4% | intergenic (‑110/‑255) | malE ← / → malK | maltose transporter subunit/fused maltose transport subunit, ATP‑binding component of ABC superfamily/regulatory protein |
| RA | 4,286,118 | A→G | 5.2% | intergenic (+396/+135) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,286,119 | A→C | 6.7% | intergenic (+397/+134) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,375,469 | A→C | 8.4% | Y87S (TAC→TCC) | yjeN → | uncharacterized protein |
| RA | 4,561,269 | G→A | 100% | S41S (AGC→AGT) | yjiR ← | putative DNA‑binding transcriptional regulator/putative aminotransferase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | CP009273 | 4323062 | 4323797 | 736 | 106 [98] | [99] 102 | [basS]–[eptA] | [basS],basR,[eptA] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 360104 = | 287 (0.980) | 319 (1.090) | 76/248 | NT | 52.6% | 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 | 1203246 = | 150 (0.510) | 187 (0.740) | 55/216 | NT | 62.0% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | 1205075 = | 99 (0.390) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | = 1203261 | 147 (0.500) | 176 (0.690) | 53/216 | NT | 60.8% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | = 1205058 | 99 (0.390) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | 4532499 = | 72 (0.250) | 14 (0.050) | 7/230 | NT | 10.9% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | 4532813 = | 161 (0.600) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||