Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS01690

Experiment: Rhamnogalacturonan from soy bean pectic fibre 2.5 mg/ml (C)

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_RS01695 and HMPREF1058_RS01690 are separated by 243 nucleotidesHMPREF1058_RS01690 and HMPREF1058_RS01685 are separated by 109 nucleotides HMPREF1058_RS01695: HMPREF1058_RS01695 - LacI family DNA-binding transcriptional regulator, at 64,748 to 65,821 _RS01695 HMPREF1058_RS01690: HMPREF1058_RS01690 - sugar kinase, at 66,065 to 67,087 _RS01690 HMPREF1058_RS01685: HMPREF1058_RS01685 - bifunctional 4-hydroxy-2-oxoglutarate aldolase/2-dehydro-3-deoxy-phosphogluconate aldolase, at 67,197 to 67,871 _RS01685 Position (kb) 66 67 68Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 65.129 kb on + strand, within HMPREF1058_RS01695at 65.353 kb on + strand, within HMPREF1058_RS01695at 65.354 kb on - strand, within HMPREF1058_RS01695at 65.357 kb on + strand, within HMPREF1058_RS01695at 65.357 kb on + strand, within HMPREF1058_RS01695at 65.357 kb on + strand, within HMPREF1058_RS01695at 65.358 kb on - strand, within HMPREF1058_RS01695at 65.359 kb on + strand, within HMPREF1058_RS01695at 65.361 kb on + strand, within HMPREF1058_RS01695at 65.361 kb on + strand, within HMPREF1058_RS01695at 65.488 kb on - strand, within HMPREF1058_RS01695at 65.505 kb on + strand, within HMPREF1058_RS01695at 65.506 kb on - strandat 65.655 kb on + strand, within HMPREF1058_RS01695at 65.656 kb on - strand, within HMPREF1058_RS01695at 65.660 kb on - strand, within HMPREF1058_RS01695at 65.660 kb on - strand, within HMPREF1058_RS01695at 65.827 kb on - strandat 65.831 kb on - strandat 65.835 kb on - strandat 65.837 kb on - strandat 65.881 kb on + strandat 65.913 kb on + strandat 65.913 kb on + strandat 65.987 kb on + strandat 66.038 kb on + strandat 66.215 kb on + strand, within HMPREF1058_RS01690at 66.279 kb on - strand, within HMPREF1058_RS01690at 66.329 kb on + strand, within HMPREF1058_RS01690at 66.330 kb on - strand, within HMPREF1058_RS01690at 66.375 kb on - strand, within HMPREF1058_RS01690at 66.434 kb on - strand, within HMPREF1058_RS01690at 66.630 kb on + strand, within HMPREF1058_RS01690at 66.630 kb on + strand, within HMPREF1058_RS01690at 66.630 kb on + strand, within HMPREF1058_RS01690at 66.630 kb on + strand, within HMPREF1058_RS01690at 66.631 kb on - strand, within HMPREF1058_RS01690at 66.631 kb on - strand, within HMPREF1058_RS01690at 66.636 kb on + strand, within HMPREF1058_RS01690at 66.636 kb on + strand, within HMPREF1058_RS01690at 66.636 kb on + strand, within HMPREF1058_RS01690at 66.637 kb on - strand, within HMPREF1058_RS01690at 66.640 kb on + strand, within HMPREF1058_RS01690at 66.642 kb on + strand, within HMPREF1058_RS01690at 66.642 kb on + strand, within HMPREF1058_RS01690at 66.725 kb on + strand, within HMPREF1058_RS01690at 66.745 kb on + strand, within HMPREF1058_RS01690at 66.767 kb on - strand, within HMPREF1058_RS01690at 66.770 kb on + strand, within HMPREF1058_RS01690at 66.771 kb on - strand, within HMPREF1058_RS01690at 66.771 kb on - strand, within HMPREF1058_RS01690at 66.782 kb on - strand, within HMPREF1058_RS01690at 66.826 kb on + strand, within HMPREF1058_RS01690at 66.827 kb on - strand, within HMPREF1058_RS01690at 67.001 kb on - strandat 67.121 kb on + strandat 67.146 kb on + strandat 67.153 kb on - strandat 67.188 kb on + strandat 67.190 kb on + strandat 67.423 kb on + strand, within HMPREF1058_RS01685at 67.423 kb on + strand, within HMPREF1058_RS01685at 67.423 kb on + strand, within HMPREF1058_RS01685at 67.487 kb on - strand, within HMPREF1058_RS01685at 67.542 kb on + strand, within HMPREF1058_RS01685at 67.545 kb on - strand, within HMPREF1058_RS01685at 67.628 kb on - strand, within HMPREF1058_RS01685at 67.790 kb on - strand, within HMPREF1058_RS01685at 67.810 kb on - strandat 67.814 kb on - strandat 67.843 kb on - strandat 67.934 kb on - strandat 67.946 kb on - strandat 68.058 kb on - strand

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Rhamnogalacturonan from soy bean pectic fibre 2.5 mg/ml (C)
remove
65,129 + HMPREF1058_RS01695 0.35 -2.5
65,353 + HMPREF1058_RS01695 0.56 +0.4
65,354 - HMPREF1058_RS01695 0.56 +1.0
65,357 + HMPREF1058_RS01695 0.57 +0.0
65,357 + HMPREF1058_RS01695 0.57 +0.3
65,357 + HMPREF1058_RS01695 0.57 +1.9
65,358 - HMPREF1058_RS01695 0.57 +2.4
65,359 + HMPREF1058_RS01695 0.57 -1.1
65,361 + HMPREF1058_RS01695 0.57 +0.5
65,361 + HMPREF1058_RS01695 0.57 +1.9
65,488 - HMPREF1058_RS01695 0.69 -0.1
65,505 + HMPREF1058_RS01695 0.70 -0.1
65,506 - +0.5
65,655 + HMPREF1058_RS01695 0.84 -0.1
65,656 - HMPREF1058_RS01695 0.85 -1.4
65,660 - HMPREF1058_RS01695 0.85 -1.7
65,660 - HMPREF1058_RS01695 0.85 +0.6
65,827 - +0.0
65,831 - -0.8
65,835 - -0.1
65,837 - +0.7
65,881 + -2.1
65,913 + +1.9
65,913 + -0.1
65,987 + -1.0
66,038 + -1.5
66,215 + HMPREF1058_RS01690 0.15 -2.4
66,279 - HMPREF1058_RS01690 0.21 -1.1
66,329 + HMPREF1058_RS01690 0.26 -1.3
66,330 - HMPREF1058_RS01690 0.26 -0.1
66,375 - HMPREF1058_RS01690 0.30 -3.9
66,434 - HMPREF1058_RS01690 0.36 -3.0
66,630 + HMPREF1058_RS01690 0.55 -1.1
66,630 + HMPREF1058_RS01690 0.55 -2.0
66,630 + HMPREF1058_RS01690 0.55 +0.9
66,630 + HMPREF1058_RS01690 0.55 -2.0
66,631 - HMPREF1058_RS01690 0.55 -1.5
66,631 - HMPREF1058_RS01690 0.55 +0.3
66,636 + HMPREF1058_RS01690 0.56 -2.6
66,636 + HMPREF1058_RS01690 0.56 +2.9
66,636 + HMPREF1058_RS01690 0.56 -1.1
66,637 - HMPREF1058_RS01690 0.56 +0.9
66,640 + HMPREF1058_RS01690 0.56 -2.3
66,642 + HMPREF1058_RS01690 0.56 -1.8
66,642 + HMPREF1058_RS01690 0.56 -3.1
66,725 + HMPREF1058_RS01690 0.65 -3.3
66,745 + HMPREF1058_RS01690 0.66 +1.5
66,767 - HMPREF1058_RS01690 0.69 -0.6
66,770 + HMPREF1058_RS01690 0.69 -1.3
66,771 - HMPREF1058_RS01690 0.69 -2.5
66,771 - HMPREF1058_RS01690 0.69 +1.9
66,782 - HMPREF1058_RS01690 0.70 -3.6
66,826 + HMPREF1058_RS01690 0.74 -2.1
66,827 - HMPREF1058_RS01690 0.74 -2.1
67,001 - -2.3
67,121 + +0.4
67,146 + -1.3
67,153 - -0.5
67,188 + -1.4
67,190 + -1.1
67,423 + HMPREF1058_RS01685 0.33 -1.8
67,423 + HMPREF1058_RS01685 0.33 -3.3
67,423 + HMPREF1058_RS01685 0.33 +0.9
67,487 - HMPREF1058_RS01685 0.43 +0.0
67,542 + HMPREF1058_RS01685 0.51 -3.1
67,545 - HMPREF1058_RS01685 0.52 -0.3
67,628 - HMPREF1058_RS01685 0.64 -3.1
67,790 - HMPREF1058_RS01685 0.88 +1.9
67,810 - -2.5
67,814 - -3.7
67,843 - -2.4
67,934 - +0.3
67,946 - -2.4
68,058 - -1.9

Or see this region's nucleotide sequence