Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS00205

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4

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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.

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500 ntHMPREF1058_RS00210 and HMPREF1058_RS00205 are separated by 165 nucleotidesHMPREF1058_RS00205 and HMPREF1058_RS00200 overlap by 14 nucleotidesHMPREF1058_RS00200 and HMPREF1058_RS00195 are separated by 2 nucleotides HMPREF1058_RS00210: HMPREF1058_RS00210 - aspartate-semialdehyde dehydrogenase, at 31,504 to 32,514 _RS00210 HMPREF1058_RS00205: HMPREF1058_RS00205 - cation:proton antiporter, at 32,680 to 34,827 _RS00205 HMPREF1058_RS00200: HMPREF1058_RS00200 - tRNA threonylcarbamoyladenosine dehydratase, at 34,814 to 35,536 _RS00200 HMPREF1058_RS00195: HMPREF1058_RS00195 - ABC transporter ATP-binding protein, at 35,539 to 36,198 _RS00195 Position (kb) 32 33 34 35Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1 2 3at 32.550 kb on - strandat 32.561 kb on - strandat 32.575 kb on - strandat 32.579 kb on - strandat 32.687 kb on + strandat 32.702 kb on + strandat 32.702 kb on + strandat 32.724 kb on + strandat 32.813 kb on + strandat 32.813 kb on + strandat 32.902 kb on + strand, within HMPREF1058_RS00205at 32.985 kb on + strand, within HMPREF1058_RS00205at 33.105 kb on + strand, within HMPREF1058_RS00205at 33.211 kb on + strand, within HMPREF1058_RS00205at 33.213 kb on + strandat 33.213 kb on + strand, within HMPREF1058_RS00205at 33.217 kb on + strand, within HMPREF1058_RS00205at 33.233 kb on + strand, within HMPREF1058_RS00205at 33.288 kb on + strandat 33.420 kb on + strandat 33.560 kb on + strand, within HMPREF1058_RS00205at 33.560 kb on + strand, within HMPREF1058_RS00205at 33.560 kb on + strand, within HMPREF1058_RS00205at 33.662 kb on + strand, within HMPREF1058_RS00205at 33.759 kb on + strand, within HMPREF1058_RS00205at 33.759 kb on + strand, within HMPREF1058_RS00205at 33.837 kb on + strand, within HMPREF1058_RS00205at 33.837 kb on + strand, within HMPREF1058_RS00205at 33.839 kb on + strand, within HMPREF1058_RS00205at 33.839 kb on + strand, within HMPREF1058_RS00205at 33.959 kb on + strand, within HMPREF1058_RS00205at 34.047 kb on + strand, within HMPREF1058_RS00205at 34.047 kb on + strand, within HMPREF1058_RS00205at 34.167 kb on + strand, within HMPREF1058_RS00205at 34.189 kb on + strand, within HMPREF1058_RS00205at 34.211 kb on + strand, within HMPREF1058_RS00205at 34.310 kb on + strand, within HMPREF1058_RS00205at 34.326 kb on + strand, within HMPREF1058_RS00205at 34.458 kb on + strand, within HMPREF1058_RS00205at 34.768 kb on + strandat 34.830 kb on + strandat 34.908 kb on + strand, within HMPREF1058_RS00200at 35.213 kb on + strand, within HMPREF1058_RS00200at 35.218 kb on + strand, within HMPREF1058_RS00200at 35.220 kb on + strand, within HMPREF1058_RS00200at 35.222 kb on + strand, within HMPREF1058_RS00200at 35.224 kb on + strand, within HMPREF1058_RS00200at 35.321 kb on + strand, within HMPREF1058_RS00200at 35.321 kb on + strand, within HMPREF1058_RS00200at 35.321 kb on + strand, within HMPREF1058_RS00200at 35.401 kb on + strand, within HMPREF1058_RS00200at 35.480 kb on + strandat 35.482 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4
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32,550 - +2.7
32,561 - +2.3
32,575 - +1.8
32,579 - -0.1
32,687 + -1.8
32,702 + -1.4
32,702 + -2.7
32,724 + -2.8
32,813 + -3.1
32,813 + -3.0
32,902 + HMPREF1058_RS00205 0.10 -2.7
32,985 + HMPREF1058_RS00205 0.14 -2.6
33,105 + HMPREF1058_RS00205 0.20 -2.9
33,211 + HMPREF1058_RS00205 0.25 -4.1
33,213 + -1.7
33,213 + HMPREF1058_RS00205 0.25 -1.3
33,217 + HMPREF1058_RS00205 0.25 -2.7
33,233 + HMPREF1058_RS00205 0.26 -2.4
33,288 + -0.1
33,420 + -0.1
33,560 + HMPREF1058_RS00205 0.41 -2.6
33,560 + HMPREF1058_RS00205 0.41 -5.3
33,560 + HMPREF1058_RS00205 0.41 -1.3
33,662 + HMPREF1058_RS00205 0.46 -2.9
33,759 + HMPREF1058_RS00205 0.50 -1.4
33,759 + HMPREF1058_RS00205 0.50 -2.9
33,837 + HMPREF1058_RS00205 0.54 -2.4
33,837 + HMPREF1058_RS00205 0.54 -2.7
33,839 + HMPREF1058_RS00205 0.54 -3.6
33,839 + HMPREF1058_RS00205 0.54 -2.4
33,959 + HMPREF1058_RS00205 0.60 -3.1
34,047 + HMPREF1058_RS00205 0.64 -2.1
34,047 + HMPREF1058_RS00205 0.64 -2.4
34,167 + HMPREF1058_RS00205 0.69 -2.4
34,189 + HMPREF1058_RS00205 0.70 +1.5
34,211 + HMPREF1058_RS00205 0.71 -3.1
34,310 + HMPREF1058_RS00205 0.76 -3.7
34,326 + HMPREF1058_RS00205 0.77 -2.5
34,458 + HMPREF1058_RS00205 0.83 -2.4
34,768 + +0.2
34,830 + -0.1
34,908 + HMPREF1058_RS00200 0.13 -2.2
35,213 + HMPREF1058_RS00200 0.55 +3.2
35,218 + HMPREF1058_RS00200 0.56 +1.9
35,220 + HMPREF1058_RS00200 0.56 -0.0
35,222 + HMPREF1058_RS00200 0.56 -0.1
35,224 + HMPREF1058_RS00200 0.57 +0.7
35,321 + HMPREF1058_RS00200 0.70 +0.5
35,321 + HMPREF1058_RS00200 0.70 -0.1
35,321 + HMPREF1058_RS00200 0.70 +0.6
35,401 + HMPREF1058_RS00200 0.81 +1.7
35,480 + +1.2
35,482 + -0.4

Or see this region's nucleotide sequence