Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS12170

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; day3

Add experiment(s):

Zoom: Pan:

Only strains with sufficient reads to estimate fitness are shown, but the strain fitness values are still rather noisy and may be biased towards zero. Strains near the edge of a gene are not shown as being associated with that gene (they are in grey). Strains in the central 10-90% of a gene are color coded by the insertion's strand. Usually, "+" means that the selectable marker is encoded on the forward strand, i.e., transcribed rightward.

download SVG
500 ntHMPREF1058_RS12175 and HMPREF1058_RS12170 are separated by 213 nucleotidesHMPREF1058_RS12170 and HMPREF1058_RS12165 are separated by 20 nucleotides HMPREF1058_RS12175: HMPREF1058_RS12175 - MFS transporter AraJ, at 184,119 to 185,279 _RS12175 HMPREF1058_RS12170: HMPREF1058_RS12170 - hypothetical protein, at 185,493 to 185,741 _RS12170 HMPREF1058_RS12165: HMPREF1058_RS12165 - radical SAM protein, at 185,762 to 186,832 _RS12165 Position (kb) 185 186Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3 4at 184.571 kb on + strand, within HMPREF1058_RS12175at 184.571 kb on + strand, within HMPREF1058_RS12175at 184.618 kb on + strand, within HMPREF1058_RS12175at 184.619 kb on - strand, within HMPREF1058_RS12175at 184.619 kb on - strand, within HMPREF1058_RS12175at 184.619 kb on - strand, within HMPREF1058_RS12175at 184.655 kb on + strand, within HMPREF1058_RS12175at 184.721 kb on + strand, within HMPREF1058_RS12175at 184.763 kb on - strand, within HMPREF1058_RS12175at 184.794 kb on - strand, within HMPREF1058_RS12175at 184.821 kb on + strand, within HMPREF1058_RS12175at 184.821 kb on + strand, within HMPREF1058_RS12175at 184.823 kb on + strand, within HMPREF1058_RS12175at 184.823 kb on + strand, within HMPREF1058_RS12175at 184.823 kb on + strand, within HMPREF1058_RS12175at 184.824 kb on - strand, within HMPREF1058_RS12175at 184.824 kb on - strand, within HMPREF1058_RS12175at 185.045 kb on + strand, within HMPREF1058_RS12175at 185.048 kb on - strand, within HMPREF1058_RS12175at 185.052 kb on - strand, within HMPREF1058_RS12175at 185.072 kb on + strand, within HMPREF1058_RS12175at 185.072 kb on + strand, within HMPREF1058_RS12175at 185.133 kb on + strand, within HMPREF1058_RS12175at 185.172 kb on - strandat 185.175 kb on + strandat 185.176 kb on - strandat 185.176 kb on - strandat 185.177 kb on + strandat 185.217 kb on + strandat 185.322 kb on + strandat 185.383 kb on - strandat 185.436 kb on - strandat 185.659 kb on - strand, within HMPREF1058_RS12170at 185.660 kb on + strand, within HMPREF1058_RS12170at 185.661 kb on - strand, within HMPREF1058_RS12170at 185.769 kb on - strandat 185.799 kb on + strandat 185.840 kb on + strandat 185.842 kb on + strandat 185.843 kb on - strandat 185.867 kb on - strandat 185.874 kb on + strand, within HMPREF1058_RS12165at 185.878 kb on + strand, within HMPREF1058_RS12165at 185.878 kb on + strand, within HMPREF1058_RS12165at 185.879 kb on - strand, within HMPREF1058_RS12165at 185.906 kb on - strand, within HMPREF1058_RS12165at 185.906 kb on - strand, within HMPREF1058_RS12165at 185.906 kb on - strand, within HMPREF1058_RS12165at 185.968 kb on + strand, within HMPREF1058_RS12165at 185.968 kb on + strand, within HMPREF1058_RS12165at 185.983 kb on + strand, within HMPREF1058_RS12165at 185.998 kb on - strand, within HMPREF1058_RS12165at 186.019 kb on - strand, within HMPREF1058_RS12165at 186.021 kb on - strand, within HMPREF1058_RS12165at 186.023 kb on - strand, within HMPREF1058_RS12165at 186.023 kb on - strand, within HMPREF1058_RS12165at 186.024 kb on + strand, within HMPREF1058_RS12165at 186.024 kb on + strand, within HMPREF1058_RS12165at 186.072 kb on + strand, within HMPREF1058_RS12165at 186.073 kb on - strand, within HMPREF1058_RS12165at 186.104 kb on - strand, within HMPREF1058_RS12165at 186.104 kb on - strand, within HMPREF1058_RS12165at 186.216 kb on + strand, within HMPREF1058_RS12165at 186.219 kb on + strand, within HMPREF1058_RS12165at 186.219 kb on + strand, within HMPREF1058_RS12165at 186.219 kb on + strand, within HMPREF1058_RS12165at 186.227 kb on - strand, within HMPREF1058_RS12165at 186.254 kb on + strand, within HMPREF1058_RS12165at 186.319 kb on + strand, within HMPREF1058_RS12165at 186.375 kb on + strand, within HMPREF1058_RS12165at 186.438 kb on + strand, within HMPREF1058_RS12165at 186.510 kb on + strand, within HMPREF1058_RS12165at 186.523 kb on + strand, within HMPREF1058_RS12165at 186.533 kb on - strand, within HMPREF1058_RS12165at 186.569 kb on - strand, within HMPREF1058_RS12165at 186.675 kb on - strand, within HMPREF1058_RS12165at 186.706 kb on + strand, within HMPREF1058_RS12165at 186.707 kb on - strand, within HMPREF1058_RS12165

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; day3
remove
184,571 + HMPREF1058_RS12175 0.39 +0.2
184,571 + HMPREF1058_RS12175 0.39 +1.6
184,618 + HMPREF1058_RS12175 0.43 -2.8
184,619 - HMPREF1058_RS12175 0.43 +0.9
184,619 - HMPREF1058_RS12175 0.43 +0.9
184,619 - HMPREF1058_RS12175 0.43 +4.0
184,655 + HMPREF1058_RS12175 0.46 +2.6
184,721 + HMPREF1058_RS12175 0.52 +0.8
184,763 - HMPREF1058_RS12175 0.55 -0.5
184,794 - HMPREF1058_RS12175 0.58 +1.6
184,821 + HMPREF1058_RS12175 0.60 +1.1
184,821 + HMPREF1058_RS12175 0.60 -2.4
184,823 + HMPREF1058_RS12175 0.61 -1.2
184,823 + HMPREF1058_RS12175 0.61 +0.5
184,823 + HMPREF1058_RS12175 0.61 +0.2
184,824 - HMPREF1058_RS12175 0.61 +2.1
184,824 - HMPREF1058_RS12175 0.61 +0.6
185,045 + HMPREF1058_RS12175 0.80 -0.2
185,048 - HMPREF1058_RS12175 0.80 +0.6
185,052 - HMPREF1058_RS12175 0.80 +0.9
185,072 + HMPREF1058_RS12175 0.82 +0.2
185,072 + HMPREF1058_RS12175 0.82 +0.0
185,133 + HMPREF1058_RS12175 0.87 +4.4
185,172 - +0.5
185,175 + +0.0
185,176 - -1.2
185,176 - +1.0
185,177 + +0.4
185,217 + -0.5
185,322 + +1.5
185,383 - +0.9
185,436 - -0.8
185,659 - HMPREF1058_RS12170 0.67 -0.6
185,660 + HMPREF1058_RS12170 0.67 +1.9
185,661 - HMPREF1058_RS12170 0.67 -1.1
185,769 - +0.1
185,799 + +0.1
185,840 + +0.6
185,842 + -0.0
185,843 - +0.5
185,867 - +0.8
185,874 + HMPREF1058_RS12165 0.10 +0.8
185,878 + HMPREF1058_RS12165 0.11 -0.9
185,878 + HMPREF1058_RS12165 0.11 -2.2
185,879 - HMPREF1058_RS12165 0.11 -1.9
185,906 - HMPREF1058_RS12165 0.13 +0.2
185,906 - HMPREF1058_RS12165 0.13 +0.5
185,906 - HMPREF1058_RS12165 0.13 -1.2
185,968 + HMPREF1058_RS12165 0.19 -1.0
185,968 + HMPREF1058_RS12165 0.19 -1.6
185,983 + HMPREF1058_RS12165 0.21 +1.0
185,998 - HMPREF1058_RS12165 0.22 -0.6
186,019 - HMPREF1058_RS12165 0.24 +0.6
186,021 - HMPREF1058_RS12165 0.24 +1.5
186,023 - HMPREF1058_RS12165 0.24 -3.1
186,023 - HMPREF1058_RS12165 0.24 +0.3
186,024 + HMPREF1058_RS12165 0.24 -0.5
186,024 + HMPREF1058_RS12165 0.24 -0.5
186,072 + HMPREF1058_RS12165 0.29 -1.5
186,073 - HMPREF1058_RS12165 0.29 +3.2
186,104 - HMPREF1058_RS12165 0.32 +0.5
186,104 - HMPREF1058_RS12165 0.32 -0.1
186,216 + HMPREF1058_RS12165 0.42 -4.2
186,219 + HMPREF1058_RS12165 0.43 -2.3
186,219 + HMPREF1058_RS12165 0.43 +2.1
186,219 + HMPREF1058_RS12165 0.43 +3.9
186,227 - HMPREF1058_RS12165 0.43 -1.8
186,254 + HMPREF1058_RS12165 0.46 -0.0
186,319 + HMPREF1058_RS12165 0.52 -0.6
186,375 + HMPREF1058_RS12165 0.57 +0.7
186,438 + HMPREF1058_RS12165 0.63 -2.8
186,510 + HMPREF1058_RS12165 0.70 -1.5
186,523 + HMPREF1058_RS12165 0.71 +0.5
186,533 - HMPREF1058_RS12165 0.72 -0.1
186,569 - HMPREF1058_RS12165 0.75 +2.9
186,675 - HMPREF1058_RS12165 0.85 +1.3
186,706 + HMPREF1058_RS12165 0.88 +0.6
186,707 - HMPREF1058_RS12165 0.88 -0.6

Or see this region's nucleotide sequence