Strain Fitness in Parabacteroides merdae CL09T00C40 around HMPREF1078_RS04820

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; 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 ntHMPREF1078_RS04810 and HMPREF1078_RS04815 are separated by 199 nucleotidesHMPREF1078_RS04815 and HMPREF1078_RS04820 are separated by 33 nucleotidesHMPREF1078_RS04820 and HMPREF1078_RS04825 are separated by 127 nucleotides HMPREF1078_RS04810: HMPREF1078_RS04810 - translation initiation factor, at 212,019 to 212,363 _RS04810 HMPREF1078_RS04815: HMPREF1078_RS04815 - 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase, at 212,563 to 213,039 _RS04815 HMPREF1078_RS04820: HMPREF1078_RS04820 - type IX secretion system outer membrane channel protein PorV, at 213,073 to 214,239 _RS04820 HMPREF1078_RS04825: HMPREF1078_RS04825 - decaprenyl-phosphate phosphoribosyltransferase, at 214,367 to 215,263 _RS04825 Position (kb) 213 214 215Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 212.355 kb on - strandat 212.364 kb on - strandat 212.420 kb on + strandat 212.420 kb on + strandat 212.420 kb on + strandat 212.420 kb on + strandat 212.421 kb on - strandat 212.421 kb on - strandat 212.421 kb on - strandat 212.421 kb on - strandat 212.429 kb on - strandat 212.429 kb on - strandat 212.468 kb on + strandat 212.468 kb on + strandat 212.469 kb on - strandat 212.469 kb on - strandat 212.470 kb on + strandat 212.493 kb on - strandat 212.527 kb on + strandat 212.538 kb on + strandat 212.560 kb on - strandat 212.565 kb on - strandat 213.226 kb on - strand, within HMPREF1078_RS04820at 213.288 kb on - strand, within HMPREF1078_RS04820at 213.288 kb on - strand, within HMPREF1078_RS04820at 213.288 kb on - strand, within HMPREF1078_RS04820at 213.292 kb on - strand, within HMPREF1078_RS04820at 213.292 kb on - strand, within HMPREF1078_RS04820at 213.292 kb on - strand, within HMPREF1078_RS04820at 213.388 kb on - strand, within HMPREF1078_RS04820at 213.388 kb on - strand, within HMPREF1078_RS04820at 213.462 kb on - strand, within HMPREF1078_RS04820at 213.498 kb on - strand, within HMPREF1078_RS04820at 213.651 kb on - strand, within HMPREF1078_RS04820at 213.762 kb on - strand, within HMPREF1078_RS04820at 213.869 kb on - strand, within HMPREF1078_RS04820at 213.987 kb on - strand, within HMPREF1078_RS04820at 213.987 kb on - strand, within HMPREF1078_RS04820at 214.009 kb on - strand, within HMPREF1078_RS04820at 214.009 kb on - strand, within HMPREF1078_RS04820at 214.202 kb on - strandat 214.207 kb on - strandat 214.231 kb on - strandat 214.231 kb on - strandat 214.235 kb on - strandat 214.235 kb on - strandat 214.235 kb on - strandat 214.235 kb on - strandat 214.235 kb on - strandat 214.240 kb on - strandat 214.240 kb on - strandat 214.240 kb on - strandat 214.252 kb on - strandat 214.256 kb on - strandat 214.330 kb on + strandat 214.377 kb on + strandat 214.378 kb on - strandat 214.404 kb on + strandat 214.447 kb on - strandat 214.447 kb on - strandat 214.548 kb on + strand, within HMPREF1078_RS04825at 214.548 kb on + strand, within HMPREF1078_RS04825at 214.549 kb on - strand, within HMPREF1078_RS04825at 214.549 kb on - strand, within HMPREF1078_RS04825at 214.550 kb on + strand, within HMPREF1078_RS04825at 214.551 kb on - strand, within HMPREF1078_RS04825at 214.668 kb on + strand, within HMPREF1078_RS04825at 214.669 kb on - strand, within HMPREF1078_RS04825at 214.670 kb on + strand, within HMPREF1078_RS04825at 214.686 kb on + strand, within HMPREF1078_RS04825at 214.686 kb on + strand, within HMPREF1078_RS04825at 214.687 kb on - strand, within HMPREF1078_RS04825at 214.742 kb on + strand, within HMPREF1078_RS04825at 214.742 kb on + strand, within HMPREF1078_RS04825at 214.742 kb on + strand, within HMPREF1078_RS04825at 214.743 kb on - strand, within HMPREF1078_RS04825at 214.744 kb on + strand, within HMPREF1078_RS04825at 214.745 kb on - strand, within HMPREF1078_RS04825at 214.745 kb on - strand, within HMPREF1078_RS04825at 214.745 kb on - strand, within HMPREF1078_RS04825at 214.759 kb on - strand, within HMPREF1078_RS04825at 214.765 kb on + strand, within HMPREF1078_RS04825at 214.765 kb on + strand, within HMPREF1078_RS04825at 214.765 kb on + strand, within HMPREF1078_RS04825at 214.786 kb on - strand, within HMPREF1078_RS04825at 214.794 kb on + strand, within HMPREF1078_RS04825at 214.795 kb on - strand, within HMPREF1078_RS04825at 214.990 kb on + strand, within HMPREF1078_RS04825at 214.990 kb on + strand, within HMPREF1078_RS04825at 214.991 kb on - strand, within HMPREF1078_RS04825at 215.048 kb on + strand, within HMPREF1078_RS04825at 215.048 kb on + strand, within HMPREF1078_RS04825at 215.049 kb on - strand, within HMPREF1078_RS04825at 215.052 kb on + strand, within HMPREF1078_RS04825at 215.052 kb on + strand, within HMPREF1078_RS04825at 215.053 kb on - strand, within HMPREF1078_RS04825at 215.057 kb on + strand, within HMPREF1078_RS04825at 215.057 kb on + strand, within HMPREF1078_RS04825at 215.097 kb on - strand, within HMPREF1078_RS04825at 215.102 kb on + strand, within HMPREF1078_RS04825at 215.102 kb on + strand, within HMPREF1078_RS04825at 215.103 kb on - strand, within HMPREF1078_RS04825at 215.196 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; day4
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212,355 - -0.9
212,364 - -0.4
212,420 + +1.4
212,420 + -1.0
212,420 + +2.1
212,420 + -1.1
212,421 - +0.9
212,421 - -0.1
212,421 - -1.3
212,421 - +1.4
212,429 - +0.7
212,429 - +2.1
212,468 + -0.9
212,468 + -0.0
212,469 - -2.3
212,469 - -0.7
212,470 + +0.1
212,493 - +0.6
212,527 + +0.8
212,538 + -0.8
212,560 - +0.1
212,565 - +0.8
213,226 - HMPREF1078_RS04820 0.13 -1.7
213,288 - HMPREF1078_RS04820 0.18 -1.7
213,288 - HMPREF1078_RS04820 0.18 -1.9
213,288 - HMPREF1078_RS04820 0.18 -1.7
213,292 - HMPREF1078_RS04820 0.19 -4.1
213,292 - HMPREF1078_RS04820 0.19 -2.5
213,292 - HMPREF1078_RS04820 0.19 -1.2
213,388 - HMPREF1078_RS04820 0.27 -1.9
213,388 - HMPREF1078_RS04820 0.27 -1.7
213,462 - HMPREF1078_RS04820 0.33 -2.0
213,498 - HMPREF1078_RS04820 0.36 -1.7
213,651 - HMPREF1078_RS04820 0.50 -1.9
213,762 - HMPREF1078_RS04820 0.59 +1.1
213,869 - HMPREF1078_RS04820 0.68 -3.0
213,987 - HMPREF1078_RS04820 0.78 -1.9
213,987 - HMPREF1078_RS04820 0.78 -0.5
214,009 - HMPREF1078_RS04820 0.80 -0.5
214,009 - HMPREF1078_RS04820 0.80 -3.0
214,202 - -0.9
214,207 - -2.3
214,231 - -0.9
214,231 - -1.9
214,235 - -0.9
214,235 - +1.1
214,235 - -1.2
214,235 - -0.5
214,235 - -0.9
214,240 - -3.3
214,240 - +0.1
214,240 - -2.9
214,252 - -2.3
214,256 - -0.4
214,330 + +0.5
214,377 + -1.5
214,378 - +0.0
214,404 + -1.5
214,447 - -1.2
214,447 - -1.9
214,548 + HMPREF1078_RS04825 0.20 -0.1
214,548 + HMPREF1078_RS04825 0.20 -1.5
214,549 - HMPREF1078_RS04825 0.20 -0.1
214,549 - HMPREF1078_RS04825 0.20 -1.5
214,550 + HMPREF1078_RS04825 0.20 +1.2
214,551 - HMPREF1078_RS04825 0.21 +0.5
214,668 + HMPREF1078_RS04825 0.34 +0.7
214,669 - HMPREF1078_RS04825 0.34 +1.6
214,670 + HMPREF1078_RS04825 0.34 +0.5
214,686 + HMPREF1078_RS04825 0.36 -1.7
214,686 + HMPREF1078_RS04825 0.36 +0.7
214,687 - HMPREF1078_RS04825 0.36 -0.3
214,742 + HMPREF1078_RS04825 0.42 -0.7
214,742 + HMPREF1078_RS04825 0.42 -0.3
214,742 + HMPREF1078_RS04825 0.42 -0.7
214,743 - HMPREF1078_RS04825 0.42 +0.4
214,744 + HMPREF1078_RS04825 0.42 +0.4
214,745 - HMPREF1078_RS04825 0.42 -0.6
214,745 - HMPREF1078_RS04825 0.42 +0.1
214,745 - HMPREF1078_RS04825 0.42 +0.1
214,759 - HMPREF1078_RS04825 0.44 +0.5
214,765 + HMPREF1078_RS04825 0.44 +0.2
214,765 + HMPREF1078_RS04825 0.44 -2.6
214,765 + HMPREF1078_RS04825 0.44 +0.7
214,786 - HMPREF1078_RS04825 0.47 +2.1
214,794 + HMPREF1078_RS04825 0.48 -1.0
214,795 - HMPREF1078_RS04825 0.48 -0.9
214,990 + HMPREF1078_RS04825 0.69 -0.6
214,990 + HMPREF1078_RS04825 0.69 -1.2
214,991 - HMPREF1078_RS04825 0.70 -0.1
215,048 + HMPREF1078_RS04825 0.76 +0.5
215,048 + HMPREF1078_RS04825 0.76 -2.1
215,049 - HMPREF1078_RS04825 0.76 +1.7
215,052 + HMPREF1078_RS04825 0.76 +1.5
215,052 + HMPREF1078_RS04825 0.76 -0.8
215,053 - HMPREF1078_RS04825 0.76 +0.4
215,057 + HMPREF1078_RS04825 0.77 +0.8
215,057 + HMPREF1078_RS04825 0.77 +0.4
215,097 - HMPREF1078_RS04825 0.81 +0.0
215,102 + HMPREF1078_RS04825 0.82 +0.7
215,102 + HMPREF1078_RS04825 0.82 +0.1
215,103 - HMPREF1078_RS04825 0.82 -0.3
215,196 + +0.3

Or see this region's nucleotide sequence