Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS05185

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; 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_RS05195 and HMPREF1058_RS05190 are separated by 207 nucleotidesHMPREF1058_RS05190 and HMPREF1058_RS05185 are separated by 188 nucleotidesHMPREF1058_RS05185 and HMPREF1058_RS05180 are separated by 47 nucleotides HMPREF1058_RS05195: HMPREF1058_RS05195 - hypothetical protein, at 218,553 to 219,026 _RS05195 HMPREF1058_RS05190: HMPREF1058_RS05190 - hypothetical protein, at 219,234 to 219,440 _RS05190 HMPREF1058_RS05185: HMPREF1058_RS05185 - hypothetical protein, at 219,629 to 219,942 _RS05185 HMPREF1058_RS05180: HMPREF1058_RS05180 - RluA family pseudouridine synthase, at 219,990 to 221,612 _RS05180 Position (kb) 219 220Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3 4 5 6at 218.638 kb on - strand, within HMPREF1058_RS05195at 218.647 kb on + strand, within HMPREF1058_RS05195at 218.672 kb on + strand, within HMPREF1058_RS05195at 218.672 kb on + strand, within HMPREF1058_RS05195at 218.673 kb on - strand, within HMPREF1058_RS05195at 218.702 kb on - strand, within HMPREF1058_RS05195at 218.705 kb on + strand, within HMPREF1058_RS05195at 218.706 kb on - strand, within HMPREF1058_RS05195at 218.757 kb on - strand, within HMPREF1058_RS05195at 218.759 kb on + strand, within HMPREF1058_RS05195at 218.799 kb on - strand, within HMPREF1058_RS05195at 218.799 kb on - strand, within HMPREF1058_RS05195at 218.807 kb on - strand, within HMPREF1058_RS05195at 218.827 kb on + strand, within HMPREF1058_RS05195at 218.828 kb on - strand, within HMPREF1058_RS05195at 218.829 kb on + strand, within HMPREF1058_RS05195at 218.829 kb on + strand, within HMPREF1058_RS05195at 218.829 kb on + strand, within HMPREF1058_RS05195at 218.829 kb on + strand, within HMPREF1058_RS05195at 218.829 kb on + strand, within HMPREF1058_RS05195at 218.830 kb on - strand, within HMPREF1058_RS05195at 218.830 kb on - strand, within HMPREF1058_RS05195at 218.934 kb on - strand, within HMPREF1058_RS05195at 218.967 kb on + strand, within HMPREF1058_RS05195at 218.995 kb on - strandat 218.995 kb on - strandat 218.995 kb on - strandat 219.002 kb on + strandat 219.036 kb on + strandat 219.056 kb on - strandat 219.102 kb on + strandat 219.232 kb on - strandat 219.235 kb on + strandat 219.236 kb on - strandat 219.286 kb on + strand, within HMPREF1058_RS05190at 219.357 kb on + strand, within HMPREF1058_RS05190at 219.357 kb on + strand, within HMPREF1058_RS05190at 219.358 kb on - strand, within HMPREF1058_RS05190at 219.362 kb on - strand, within HMPREF1058_RS05190at 219.444 kb on + strandat 219.559 kb on - strandat 219.585 kb on + strandat 219.602 kb on - strandat 219.678 kb on - strand, within HMPREF1058_RS05185at 219.735 kb on + strand, within HMPREF1058_RS05185at 219.750 kb on + strand, within HMPREF1058_RS05185at 219.751 kb on - strand, within HMPREF1058_RS05185at 219.761 kb on + strand, within HMPREF1058_RS05185at 219.761 kb on + strand, within HMPREF1058_RS05185at 219.762 kb on - strand, within HMPREF1058_RS05185at 219.768 kb on + strand, within HMPREF1058_RS05185at 219.801 kb on + strand, within HMPREF1058_RS05185at 219.829 kb on + strand, within HMPREF1058_RS05185at 219.840 kb on + strand, within HMPREF1058_RS05185at 219.840 kb on + strand, within HMPREF1058_RS05185at 219.844 kb on + strand, within HMPREF1058_RS05185at 219.847 kb on - strand, within HMPREF1058_RS05185at 219.847 kb on - strand, within HMPREF1058_RS05185at 219.847 kb on - strand, within HMPREF1058_RS05185at 219.990 kb on - strandat 220.024 kb on + strandat 220.061 kb on + strandat 220.099 kb on + strandat 220.276 kb on + strand, within HMPREF1058_RS05180at 220.314 kb on - strand, within HMPREF1058_RS05180at 220.330 kb on + strand, within HMPREF1058_RS05180at 220.330 kb on + strand, within HMPREF1058_RS05180at 220.362 kb on + strand, within HMPREF1058_RS05180at 220.372 kb on + strand, within HMPREF1058_RS05180at 220.373 kb on - strand, within HMPREF1058_RS05180at 220.427 kb on + strand, within HMPREF1058_RS05180at 220.513 kb on + strand, within HMPREF1058_RS05180at 220.543 kb on + strand, within HMPREF1058_RS05180at 220.585 kb on + strand, within HMPREF1058_RS05180at 220.743 kb on - strand, within HMPREF1058_RS05180at 220.801 kb on - strand, within HMPREF1058_RS05180at 220.806 kb on + strand, within HMPREF1058_RS05180at 220.806 kb on + strand, within HMPREF1058_RS05180at 220.809 kb on - strandat 220.826 kb on + strand, within HMPREF1058_RS05180at 220.874 kb on - strand, within HMPREF1058_RS05180at 220.890 kb on + strand, within HMPREF1058_RS05180at 220.890 kb on + strandat 220.891 kb on - strand, within HMPREF1058_RS05180at 220.891 kb on - strand, within HMPREF1058_RS05180at 220.934 kb on + strand, within HMPREF1058_RS05180at 220.934 kb on + strand, within HMPREF1058_RS05180at 220.935 kb on - strand, within HMPREF1058_RS05180at 220.935 kb on - strand, within HMPREF1058_RS05180at 220.935 kb on - strand, within HMPREF1058_RS05180at 220.935 kb on - strand, within HMPREF1058_RS05180

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day4
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218,638 - HMPREF1058_RS05195 0.18 +0.3
218,647 + HMPREF1058_RS05195 0.20 -0.6
218,672 + HMPREF1058_RS05195 0.25 +0.3
218,672 + HMPREF1058_RS05195 0.25 +1.0
218,673 - HMPREF1058_RS05195 0.25 -2.0
218,702 - HMPREF1058_RS05195 0.31 +0.0
218,705 + HMPREF1058_RS05195 0.32 +0.9
218,706 - HMPREF1058_RS05195 0.32 -0.4
218,757 - HMPREF1058_RS05195 0.43 +0.0
218,759 + HMPREF1058_RS05195 0.43 +0.4
218,799 - HMPREF1058_RS05195 0.52 -0.3
218,799 - HMPREF1058_RS05195 0.52 -1.6
218,807 - HMPREF1058_RS05195 0.54 -1.6
218,827 + HMPREF1058_RS05195 0.58 +0.5
218,828 - HMPREF1058_RS05195 0.58 +2.1
218,829 + HMPREF1058_RS05195 0.58 +0.3
218,829 + HMPREF1058_RS05195 0.58 +0.3
218,829 + HMPREF1058_RS05195 0.58 +0.6
218,829 + HMPREF1058_RS05195 0.58 +0.0
218,829 + HMPREF1058_RS05195 0.58 +0.8
218,830 - HMPREF1058_RS05195 0.58 +0.0
218,830 - HMPREF1058_RS05195 0.58 +1.1
218,934 - HMPREF1058_RS05195 0.80 +0.5
218,967 + HMPREF1058_RS05195 0.87 +0.9
218,995 - -0.4
218,995 - -2.3
218,995 - -1.9
219,002 + -1.0
219,036 + +2.6
219,056 - +1.1
219,102 + +1.9
219,232 - -0.9
219,235 + +0.4
219,236 - +4.0
219,286 + HMPREF1058_RS05190 0.25 -2.1
219,357 + HMPREF1058_RS05190 0.59 -2.3
219,357 + HMPREF1058_RS05190 0.59 -3.0
219,358 - HMPREF1058_RS05190 0.60 +3.3
219,362 - HMPREF1058_RS05190 0.62 +2.2
219,444 + +0.2
219,559 - +0.3
219,585 + +1.8
219,602 - +2.6
219,678 - HMPREF1058_RS05185 0.16 +0.2
219,735 + HMPREF1058_RS05185 0.34 +0.1
219,750 + HMPREF1058_RS05185 0.39 +3.5
219,751 - HMPREF1058_RS05185 0.39 -1.3
219,761 + HMPREF1058_RS05185 0.42 +0.6
219,761 + HMPREF1058_RS05185 0.42 +3.6
219,762 - HMPREF1058_RS05185 0.42 +4.3
219,768 + HMPREF1058_RS05185 0.44 +1.1
219,801 + HMPREF1058_RS05185 0.55 -0.7
219,829 + HMPREF1058_RS05185 0.64 +1.8
219,840 + HMPREF1058_RS05185 0.67 +2.5
219,840 + HMPREF1058_RS05185 0.67 -0.8
219,844 + HMPREF1058_RS05185 0.68 -0.6
219,847 - HMPREF1058_RS05185 0.69 +0.6
219,847 - HMPREF1058_RS05185 0.69 +0.0
219,847 - HMPREF1058_RS05185 0.69 -1.0
219,990 - +3.7
220,024 + +6.2
220,061 + +0.0
220,099 + +0.5
220,276 + HMPREF1058_RS05180 0.18 +0.8
220,314 - HMPREF1058_RS05180 0.20 -0.4
220,330 + HMPREF1058_RS05180 0.21 +1.2
220,330 + HMPREF1058_RS05180 0.21 +0.4
220,362 + HMPREF1058_RS05180 0.23 +0.5
220,372 + HMPREF1058_RS05180 0.24 -3.2
220,373 - HMPREF1058_RS05180 0.24 +2.3
220,427 + HMPREF1058_RS05180 0.27 -0.5
220,513 + HMPREF1058_RS05180 0.32 -2.8
220,543 + HMPREF1058_RS05180 0.34 +1.0
220,585 + HMPREF1058_RS05180 0.37 -2.0
220,743 - HMPREF1058_RS05180 0.46 +1.0
220,801 - HMPREF1058_RS05180 0.50 +1.6
220,806 + HMPREF1058_RS05180 0.50 -1.0
220,806 + HMPREF1058_RS05180 0.50 -0.5
220,809 - +1.6
220,826 + HMPREF1058_RS05180 0.52 -1.7
220,874 - HMPREF1058_RS05180 0.54 -3.0
220,890 + HMPREF1058_RS05180 0.55 -1.6
220,890 + -2.0
220,891 - HMPREF1058_RS05180 0.56 +1.5
220,891 - HMPREF1058_RS05180 0.56 +2.5
220,934 + HMPREF1058_RS05180 0.58 +3.7
220,934 + HMPREF1058_RS05180 0.58 -2.0
220,935 - HMPREF1058_RS05180 0.58 +0.0
220,935 - HMPREF1058_RS05180 0.58 -0.3
220,935 - HMPREF1058_RS05180 0.58 -0.3
220,935 - HMPREF1058_RS05180 0.58 +0.0

Or see this region's nucleotide sequence