Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS00110

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; day4

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_RS00120 and HMPREF1058_RS00115 overlap by 4 nucleotidesHMPREF1058_RS00115 and HMPREF1058_RS00110 overlap by 23 nucleotidesHMPREF1058_RS00110 and HMPREF1058_RS00105 are separated by 17 nucleotides HMPREF1058_RS00120: HMPREF1058_RS00120 - hypothetical protein, at 54,891 to 55,694 _RS00120 HMPREF1058_RS00115: HMPREF1058_RS00115 - DUF4450 domain-containing protein, at 55,691 to 56,389 _RS00115 HMPREF1058_RS00110: HMPREF1058_RS00110 - right-handed parallel beta-helix repeat-containing protein, at 56,367 to 57,851 _RS00110 HMPREF1058_RS00105: HMPREF1058_RS00105 - rhamnogalacturonan acetylesterase, at 57,869 to 59,143 _RS00105 Position (kb) 56 57 58Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 55.547 kb on + strand, within HMPREF1058_RS00120at 55.548 kb on - strand, within HMPREF1058_RS00120at 55.548 kb on - strand, within HMPREF1058_RS00120at 55.591 kb on - strand, within HMPREF1058_RS00120at 55.676 kb on - strandat 55.747 kb on + strandat 55.806 kb on - strand, within HMPREF1058_RS00115at 55.873 kb on + strand, within HMPREF1058_RS00115at 55.953 kb on + strand, within HMPREF1058_RS00115at 55.953 kb on + strand, within HMPREF1058_RS00115at 55.954 kb on - strandat 55.960 kb on + strand, within HMPREF1058_RS00115at 56.117 kb on - strand, within HMPREF1058_RS00115at 56.125 kb on + strand, within HMPREF1058_RS00115at 56.145 kb on - strand, within HMPREF1058_RS00115at 56.145 kb on - strand, within HMPREF1058_RS00115at 56.145 kb on - strand, within HMPREF1058_RS00115at 56.370 kb on + strandat 56.390 kb on - strandat 56.448 kb on + strandat 56.512 kb on - strandat 56.583 kb on - strand, within HMPREF1058_RS00110at 56.622 kb on + strand, within HMPREF1058_RS00110at 56.622 kb on + strand, within HMPREF1058_RS00110at 56.727 kb on - strand, within HMPREF1058_RS00110at 56.732 kb on - strand, within HMPREF1058_RS00110at 56.732 kb on - strand, within HMPREF1058_RS00110at 56.735 kb on + strand, within HMPREF1058_RS00110at 56.735 kb on + strand, within HMPREF1058_RS00110at 56.735 kb on + strand, within HMPREF1058_RS00110at 56.736 kb on - strand, within HMPREF1058_RS00110at 56.736 kb on - strand, within HMPREF1058_RS00110at 56.806 kb on + strand, within HMPREF1058_RS00110at 56.887 kb on + strand, within HMPREF1058_RS00110at 57.057 kb on + strand, within HMPREF1058_RS00110at 57.104 kb on + strand, within HMPREF1058_RS00110at 57.138 kb on - strand, within HMPREF1058_RS00110at 57.165 kb on - strand, within HMPREF1058_RS00110at 57.165 kb on - strand, within HMPREF1058_RS00110at 57.178 kb on + strand, within HMPREF1058_RS00110at 57.234 kb on + strand, within HMPREF1058_RS00110at 57.237 kb on - strand, within HMPREF1058_RS00110at 57.237 kb on - strand, within HMPREF1058_RS00110at 57.260 kb on + strand, within HMPREF1058_RS00110at 57.341 kb on + strand, within HMPREF1058_RS00110at 57.342 kb on - strand, within HMPREF1058_RS00110at 57.375 kb on - strand, within HMPREF1058_RS00110at 57.389 kb on + strand, within HMPREF1058_RS00110at 57.477 kb on + strand, within HMPREF1058_RS00110at 57.478 kb on - strand, within HMPREF1058_RS00110at 57.531 kb on + strand, within HMPREF1058_RS00110at 57.536 kb on + strand, within HMPREF1058_RS00110at 57.810 kb on + strandat 57.811 kb on - strandat 57.831 kb on + strandat 57.831 kb on + strandat 57.831 kb on + strandat 57.835 kb on - strandat 57.860 kb on - strandat 57.871 kb on - strandat 57.989 kb on - strandat 58.022 kb on - strand, within HMPREF1058_RS00105at 58.064 kb on - strand, within HMPREF1058_RS00105at 58.116 kb on - strand, within HMPREF1058_RS00105at 58.116 kb on - strand, within HMPREF1058_RS00105at 58.358 kb on - strand, within HMPREF1058_RS00105at 58.368 kb on + strand, within HMPREF1058_RS00105at 58.368 kb on + strand, within HMPREF1058_RS00105at 58.369 kb on - strand, within HMPREF1058_RS00105at 58.513 kb on - strand, within HMPREF1058_RS00105at 58.592 kb on + strand, within HMPREF1058_RS00105at 58.633 kb on + strand, within HMPREF1058_RS00105at 58.634 kb on - strand, within HMPREF1058_RS00105at 58.634 kb on - strand, within HMPREF1058_RS00105at 58.693 kb on + strand, within HMPREF1058_RS00105at 58.762 kb on + strand, within HMPREF1058_RS00105at 58.792 kb on + strand, within HMPREF1058_RS00105

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; day4
remove
55,547 + HMPREF1058_RS00120 0.82 -0.5
55,548 - HMPREF1058_RS00120 0.82 -3.0
55,548 - HMPREF1058_RS00120 0.82 -0.8
55,591 - HMPREF1058_RS00120 0.87 +0.4
55,676 - -0.2
55,747 + +0.2
55,806 - HMPREF1058_RS00115 0.16 -1.8
55,873 + HMPREF1058_RS00115 0.26 +0.9
55,953 + HMPREF1058_RS00115 0.37 -1.0
55,953 + HMPREF1058_RS00115 0.37 -0.6
55,954 - -0.2
55,960 + HMPREF1058_RS00115 0.38 -2.3
56,117 - HMPREF1058_RS00115 0.61 +0.8
56,125 + HMPREF1058_RS00115 0.62 -1.4
56,145 - HMPREF1058_RS00115 0.65 -0.8
56,145 - HMPREF1058_RS00115 0.65 -1.1
56,145 - HMPREF1058_RS00115 0.65 -1.5
56,370 + +2.1
56,390 - -0.6
56,448 + -0.2
56,512 - -0.9
56,583 - HMPREF1058_RS00110 0.15 +0.2
56,622 + HMPREF1058_RS00110 0.17 -1.3
56,622 + HMPREF1058_RS00110 0.17 -1.8
56,727 - HMPREF1058_RS00110 0.24 +0.8
56,732 - HMPREF1058_RS00110 0.25 -0.7
56,732 - HMPREF1058_RS00110 0.25 -1.2
56,735 + HMPREF1058_RS00110 0.25 -0.2
56,735 + HMPREF1058_RS00110 0.25 -2.2
56,735 + HMPREF1058_RS00110 0.25 +1.8
56,736 - HMPREF1058_RS00110 0.25 -0.7
56,736 - HMPREF1058_RS00110 0.25 -0.2
56,806 + HMPREF1058_RS00110 0.30 -0.0
56,887 + HMPREF1058_RS00110 0.35 +0.5
57,057 + HMPREF1058_RS00110 0.46 +1.1
57,104 + HMPREF1058_RS00110 0.50 +0.6
57,138 - HMPREF1058_RS00110 0.52 -2.8
57,165 - HMPREF1058_RS00110 0.54 +0.0
57,165 - HMPREF1058_RS00110 0.54 -1.6
57,178 + HMPREF1058_RS00110 0.55 -0.4
57,234 + HMPREF1058_RS00110 0.58 +0.5
57,237 - HMPREF1058_RS00110 0.59 +0.0
57,237 - HMPREF1058_RS00110 0.59 -0.4
57,260 + HMPREF1058_RS00110 0.60 +0.6
57,341 + HMPREF1058_RS00110 0.66 -0.2
57,342 - HMPREF1058_RS00110 0.66 -1.1
57,375 - HMPREF1058_RS00110 0.68 -0.0
57,389 + HMPREF1058_RS00110 0.69 -0.2
57,477 + HMPREF1058_RS00110 0.75 -1.2
57,478 - HMPREF1058_RS00110 0.75 -1.2
57,531 + HMPREF1058_RS00110 0.78 -2.0
57,536 + HMPREF1058_RS00110 0.79 -2.0
57,810 + -0.8
57,811 - -1.2
57,831 + +1.4
57,831 + -0.4
57,831 + +0.8
57,835 - -1.9
57,860 - +0.6
57,871 - +1.2
57,989 - -2.5
58,022 - HMPREF1058_RS00105 0.12 -2.8
58,064 - HMPREF1058_RS00105 0.15 -2.6
58,116 - HMPREF1058_RS00105 0.19 +1.9
58,116 - HMPREF1058_RS00105 0.19 -0.2
58,358 - HMPREF1058_RS00105 0.38 +1.4
58,368 + HMPREF1058_RS00105 0.39 -1.9
58,368 + HMPREF1058_RS00105 0.39 -0.2
58,369 - HMPREF1058_RS00105 0.39 -1.2
58,513 - HMPREF1058_RS00105 0.51 -1.0
58,592 + HMPREF1058_RS00105 0.57 +0.4
58,633 + HMPREF1058_RS00105 0.60 -1.8
58,634 - HMPREF1058_RS00105 0.60 +0.7
58,634 - HMPREF1058_RS00105 0.60 -2.4
58,693 + HMPREF1058_RS00105 0.65 -1.8
58,762 + HMPREF1058_RS00105 0.70 -0.2
58,792 + HMPREF1058_RS00105 0.72 +1.6

Or see this region's nucleotide sequence