Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS04065

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; 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_RS04070 and HMPREF1058_RS04065 are separated by 19 nucleotidesHMPREF1058_RS04065 and HMPREF1058_RS04060 are separated by 12 nucleotides HMPREF1058_RS04070: HMPREF1058_RS04070 - hypothetical protein, at 122,116 to 123,213 _RS04070 HMPREF1058_RS04065: HMPREF1058_RS04065 - VWA domain-containing protein, at 123,233 to 124,231 _RS04065 HMPREF1058_RS04060: HMPREF1058_RS04060 - VWA domain-containing protein, at 124,244 to 125,266 _RS04060 Position (kb) 123 124 125Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1at 122.395 kb on - strand, within HMPREF1058_RS04070at 122.415 kb on + strand, within HMPREF1058_RS04070at 122.533 kb on - strand, within HMPREF1058_RS04070at 122.533 kb on - strand, within HMPREF1058_RS04070at 122.579 kb on + strand, within HMPREF1058_RS04070at 122.613 kb on - strand, within HMPREF1058_RS04070at 122.654 kb on - strand, within HMPREF1058_RS04070at 122.667 kb on - strand, within HMPREF1058_RS04070at 122.800 kb on + strand, within HMPREF1058_RS04070at 122.939 kb on - strand, within HMPREF1058_RS04070at 123.175 kb on + strandat 123.194 kb on + strandat 123.196 kb on + strandat 123.196 kb on + strandat 123.196 kb on + strandat 123.196 kb on + strandat 123.196 kb on + strandat 123.197 kb on - strandat 123.284 kb on + strandat 123.284 kb on + strandat 123.285 kb on - strandat 123.285 kb on - strandat 123.289 kb on - strandat 123.292 kb on - strandat 123.486 kb on + strand, within HMPREF1058_RS04065at 123.529 kb on + strand, within HMPREF1058_RS04065at 124.089 kb on + strand, within HMPREF1058_RS04065at 124.274 kb on + strandat 124.288 kb on - strandat 124.909 kb on - strand, within HMPREF1058_RS04060

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4
remove
122,395 - HMPREF1058_RS04070 0.25 +0.2
122,415 + HMPREF1058_RS04070 0.27 -1.8
122,533 - HMPREF1058_RS04070 0.38 +0.2
122,533 - HMPREF1058_RS04070 0.38 -1.8
122,579 + HMPREF1058_RS04070 0.42 -4.0
122,613 - HMPREF1058_RS04070 0.45 -1.4
122,654 - HMPREF1058_RS04070 0.49 -5.2
122,667 - HMPREF1058_RS04070 0.50 +0.2
122,800 + HMPREF1058_RS04070 0.62 -0.8
122,939 - HMPREF1058_RS04070 0.75 -1.8
123,175 + -1.4
123,194 + -1.8
123,196 + +0.2
123,196 + -1.4
123,196 + -1.4
123,196 + +0.4
123,196 + +0.5
123,197 - -0.8
123,284 + -3.5
123,284 + -0.8
123,285 - -0.8
123,285 - -1.8
123,289 - -1.4
123,292 - -0.8
123,486 + HMPREF1058_RS04065 0.25 -3.4
123,529 + HMPREF1058_RS04065 0.30 -2.4
124,089 + HMPREF1058_RS04065 0.86 -1.8
124,274 + -3.1
124,288 - -1.8
124,909 - HMPREF1058_RS04060 0.65 -1.4

Or see this region's nucleotide sequence