Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS12780

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse20; day9

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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_RS12785 and HMPREF1058_RS12780 are separated by 213 nucleotidesHMPREF1058_RS12780 and HMPREF1058_RS12775 are separated by 5 nucleotidesHMPREF1058_RS12775 and HMPREF1058_RS12770 are separated by 106 nucleotides HMPREF1058_RS12785: HMPREF1058_RS12785 - long-chain fatty acid--CoA ligase, at 32,281 to 34,086 _RS12785 HMPREF1058_RS12780: HMPREF1058_RS12780 - M20 family metallo-hydrolase, at 34,300 to 35,364 _RS12780 HMPREF1058_RS12775: HMPREF1058_RS12775 - hypothetical protein, at 35,370 to 35,699 _RS12775 HMPREF1058_RS12770: HMPREF1058_RS12770 - polysaccharide biosynthesis protein, at 35,806 to 36,648 _RS12770 Position (kb) 34 35 36Strain fitness (log2 ratio) -7 -6 -5 -4 -3 -2 -1 0 1 2at 33.334 kb on - strand, within HMPREF1058_RS12785at 33.342 kb on + strand, within HMPREF1058_RS12785at 33.342 kb on + strand, within HMPREF1058_RS12785at 33.411 kb on + strand, within HMPREF1058_RS12785at 33.473 kb on + strand, within HMPREF1058_RS12785at 33.473 kb on + strand, within HMPREF1058_RS12785at 33.535 kb on - strand, within HMPREF1058_RS12785at 33.567 kb on + strand, within HMPREF1058_RS12785at 33.731 kb on + strand, within HMPREF1058_RS12785at 33.757 kb on - strand, within HMPREF1058_RS12785at 33.757 kb on - strand, within HMPREF1058_RS12785at 33.757 kb on - strand, within HMPREF1058_RS12785at 33.757 kb on - strand, within HMPREF1058_RS12785at 33.759 kb on - strand, within HMPREF1058_RS12785at 33.779 kb on - strand, within HMPREF1058_RS12785at 33.784 kb on - strand, within HMPREF1058_RS12785at 33.784 kb on - strand, within HMPREF1058_RS12785at 33.784 kb on - strand, within HMPREF1058_RS12785at 33.785 kb on + strand, within HMPREF1058_RS12785at 33.785 kb on + strand, within HMPREF1058_RS12785at 33.785 kb on + strand, within HMPREF1058_RS12785at 33.785 kb on + strand, within HMPREF1058_RS12785at 33.785 kb on + strand, within HMPREF1058_RS12785at 33.786 kb on - strand, within HMPREF1058_RS12785at 33.786 kb on - strand, within HMPREF1058_RS12785at 33.823 kb on + strand, within HMPREF1058_RS12785at 33.864 kb on - strand, within HMPREF1058_RS12785at 33.901 kb on - strand, within HMPREF1058_RS12785at 33.916 kb on + strandat 33.916 kb on + strandat 33.918 kb on + strandat 33.923 kb on - strandat 33.928 kb on + strandat 34.003 kb on - strandat 34.057 kb on + strandat 34.151 kb on + strandat 34.282 kb on + strandat 34.282 kb on + strandat 34.310 kb on + strandat 34.311 kb on - strandat 34.311 kb on - strandat 34.316 kb on - strandat 34.411 kb on + strand, within HMPREF1058_RS12780at 34.411 kb on + strand, within HMPREF1058_RS12780at 34.411 kb on + strand, within HMPREF1058_RS12780at 34.411 kb on + strand, within HMPREF1058_RS12780at 34.412 kb on - strand, within HMPREF1058_RS12780at 34.429 kb on - strand, within HMPREF1058_RS12780at 34.623 kb on - strand, within HMPREF1058_RS12780at 34.623 kb on - strand, within HMPREF1058_RS12780at 34.625 kb on + strand, within HMPREF1058_RS12780at 34.632 kb on - strand, within HMPREF1058_RS12780at 34.657 kb on - strand, within HMPREF1058_RS12780at 34.672 kb on + strand, within HMPREF1058_RS12780at 34.727 kb on + strand, within HMPREF1058_RS12780at 34.727 kb on + strand, within HMPREF1058_RS12780at 34.748 kb on + strand, within HMPREF1058_RS12780at 34.884 kb on + strand, within HMPREF1058_RS12780at 34.983 kb on - strand, within HMPREF1058_RS12780at 35.056 kb on + strand, within HMPREF1058_RS12780at 35.057 kb on - strand, within HMPREF1058_RS12780at 35.184 kb on - strand, within HMPREF1058_RS12780at 35.208 kb on + strand, within HMPREF1058_RS12780at 35.209 kb on - strand, within HMPREF1058_RS12780at 35.293 kb on + strandat 35.295 kb on + strandat 35.332 kb on + strandat 35.333 kb on - strandat 35.333 kb on - strandat 35.372 kb on - strandat 35.394 kb on - strandat 35.418 kb on + strand, within HMPREF1058_RS12775at 35.477 kb on + strand, within HMPREF1058_RS12775at 35.478 kb on - strand, within HMPREF1058_RS12775at 35.585 kb on + strand, within HMPREF1058_RS12775at 35.671 kb on + strandat 35.671 kb on + strandat 35.671 kb on + strandat 35.672 kb on - strandat 35.676 kb on - strandat 35.700 kb on - strandat 35.722 kb on + strandat 35.741 kb on - strandat 35.781 kb on - strandat 35.785 kb on - strandat 35.788 kb on + strandat 35.789 kb on - strandat 35.812 kb on - strandat 35.822 kb on - strandat 35.832 kb on + strandat 36.050 kb on - strand, within HMPREF1058_RS12770at 36.069 kb on + strand, within HMPREF1058_RS12770at 36.100 kb on + strand, within HMPREF1058_RS12770at 36.156 kb on + strand, within HMPREF1058_RS12770at 36.166 kb on + strand, within HMPREF1058_RS12770at 36.189 kb on + strand, within HMPREF1058_RS12770at 36.189 kb on + strand, within HMPREF1058_RS12770at 36.190 kb on - strand, within HMPREF1058_RS12770at 36.190 kb on - strand, within HMPREF1058_RS12770at 36.190 kb on - strand, within HMPREF1058_RS12770at 36.253 kb on - strand, within HMPREF1058_RS12770at 36.309 kb on + strand, within HMPREF1058_RS12770at 36.316 kb on + strand, within HMPREF1058_RS12770

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse20; day9
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33,334 - HMPREF1058_RS12785 0.58 -2.7
33,342 + HMPREF1058_RS12785 0.59 +0.0
33,342 + HMPREF1058_RS12785 0.59 -2.7
33,411 + HMPREF1058_RS12785 0.63 -3.7
33,473 + HMPREF1058_RS12785 0.66 -1.7
33,473 + HMPREF1058_RS12785 0.66 -2.8
33,535 - HMPREF1058_RS12785 0.69 -2.0
33,567 + HMPREF1058_RS12785 0.71 +0.7
33,731 + HMPREF1058_RS12785 0.80 -2.5
33,757 - HMPREF1058_RS12785 0.82 -3.2
33,757 - HMPREF1058_RS12785 0.82 -4.7
33,757 - HMPREF1058_RS12785 0.82 -1.9
33,757 - HMPREF1058_RS12785 0.82 -1.4
33,759 - HMPREF1058_RS12785 0.82 -3.3
33,779 - HMPREF1058_RS12785 0.83 -3.7
33,784 - HMPREF1058_RS12785 0.83 -2.8
33,784 - HMPREF1058_RS12785 0.83 -2.3
33,784 - HMPREF1058_RS12785 0.83 -4.2
33,785 + HMPREF1058_RS12785 0.83 -3.1
33,785 + HMPREF1058_RS12785 0.83 -3.0
33,785 + HMPREF1058_RS12785 0.83 -3.3
33,785 + HMPREF1058_RS12785 0.83 -3.3
33,785 + HMPREF1058_RS12785 0.83 +0.1
33,786 - HMPREF1058_RS12785 0.83 -2.6
33,786 - HMPREF1058_RS12785 0.83 -3.2
33,823 + HMPREF1058_RS12785 0.85 -3.2
33,864 - HMPREF1058_RS12785 0.88 -5.1
33,901 - HMPREF1058_RS12785 0.90 -3.3
33,916 + -3.1
33,916 + -2.3
33,918 + -1.6
33,923 - -2.0
33,928 + -1.0
34,003 - -1.1
34,057 + -3.7
34,151 + -2.5
34,282 + +2.7
34,282 + -0.9
34,310 + -1.5
34,311 - -1.7
34,311 - -3.0
34,316 - -2.2
34,411 + HMPREF1058_RS12780 0.10 -3.4
34,411 + HMPREF1058_RS12780 0.10 -4.4
34,411 + HMPREF1058_RS12780 0.10 -5.6
34,411 + HMPREF1058_RS12780 0.10 -5.6
34,412 - HMPREF1058_RS12780 0.11 -4.3
34,429 - HMPREF1058_RS12780 0.12 -4.9
34,623 - HMPREF1058_RS12780 0.30 -3.3
34,623 - HMPREF1058_RS12780 0.30 -6.5
34,625 + HMPREF1058_RS12780 0.31 -3.3
34,632 - HMPREF1058_RS12780 0.31 -2.3
34,657 - HMPREF1058_RS12780 0.34 -2.5
34,672 + HMPREF1058_RS12780 0.35 -2.5
34,727 + HMPREF1058_RS12780 0.40 -3.4
34,727 + HMPREF1058_RS12780 0.40 -2.9
34,748 + HMPREF1058_RS12780 0.42 -3.6
34,884 + HMPREF1058_RS12780 0.55 -5.4
34,983 - HMPREF1058_RS12780 0.64 -4.4
35,056 + HMPREF1058_RS12780 0.71 -3.8
35,057 - HMPREF1058_RS12780 0.71 -5.5
35,184 - HMPREF1058_RS12780 0.83 -2.3
35,208 + HMPREF1058_RS12780 0.85 -4.2
35,209 - HMPREF1058_RS12780 0.85 -6.0
35,293 + -3.9
35,295 + -3.1
35,332 + -2.7
35,333 - -5.1
35,333 - -6.9
35,372 - -0.8
35,394 - -0.7
35,418 + HMPREF1058_RS12775 0.15 +0.3
35,477 + HMPREF1058_RS12775 0.32 -1.3
35,478 - HMPREF1058_RS12775 0.33 -1.5
35,585 + HMPREF1058_RS12775 0.65 -0.7
35,671 + +0.1
35,671 + +1.7
35,671 + +0.4
35,672 - +0.4
35,676 - -1.6
35,700 - -1.2
35,722 + -2.5
35,741 - -1.2
35,781 - -0.3
35,785 - +1.3
35,788 + -2.2
35,789 - -3.9
35,812 - +0.8
35,822 - +0.2
35,832 + +0.4
36,050 - HMPREF1058_RS12770 0.29 +1.0
36,069 + HMPREF1058_RS12770 0.31 +0.9
36,100 + HMPREF1058_RS12770 0.35 -2.0
36,156 + HMPREF1058_RS12770 0.42 -0.1
36,166 + HMPREF1058_RS12770 0.43 +0.0
36,189 + HMPREF1058_RS12770 0.45 -0.1
36,189 + HMPREF1058_RS12770 0.45 -0.0
36,190 - HMPREF1058_RS12770 0.46 -1.1
36,190 - HMPREF1058_RS12770 0.46 +0.5
36,190 - HMPREF1058_RS12770 0.46 +0.8
36,253 - HMPREF1058_RS12770 0.53 +0.4
36,309 + HMPREF1058_RS12770 0.60 -3.5
36,316 + HMPREF1058_RS12770 0.60 +0.1

Or see this region's nucleotide sequence