Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS09875

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; day6

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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_RS09885 and HMPREF1058_RS0119685 overlap by 4 nucleotidesHMPREF1058_RS0119685 and HMPREF1058_RS09880 are separated by 10 nucleotidesHMPREF1058_RS09880 and HMPREF1058_RS09875 are separated by 201 nucleotidesHMPREF1058_RS09875 and HMPREF1058_RS09870 overlap by 4 nucleotidesHMPREF1058_RS09870 and HMPREF1058_RS09865 are separated by 19 nucleotidesHMPREF1058_RS09865 and HMPREF1058_RS09860 are separated by 2 nucleotides HMPREF1058_RS09885: HMPREF1058_RS09885 - TraG family conjugative transposon ATPase, at 765,390 to 767,894 _RS09885 HMPREF1058_RS0119685: HMPREF1058_RS0119685 - DUF4133 domain-containing protein, at 767,891 to 768,223 _RS0119685 HMPREF1058_RS09880: HMPREF1058_RS09880 - DUF4134 domain-containing protein, at 768,234 to 768,545 _RS09880 HMPREF1058_RS09875: HMPREF1058_RS09875 - hypothetical protein, at 768,747 to 769,466 _RS09875 HMPREF1058_RS09870: HMPREF1058_RS09870 - DUF3408 domain-containing protein, at 769,463 to 769,705 _RS09870 HMPREF1058_RS09865: HMPREF1058_RS09865 - DUF3408 domain-containing protein, at 769,725 to 770,072 _RS09865 HMPREF1058_RS09860: HMPREF1058_RS09860 - DUF3408 domain-containing protein, at 770,075 to 770,515 _RS09860 Position (kb) 768 769 770Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 768.035 kb on + strand, within HMPREF1058_RS0119685at 768.223 kb on + strandat 768.223 kb on + strandat 768.223 kb on + strandat 768.418 kb on + strand, within HMPREF1058_RS09880at 768.501 kb on - strand, within HMPREF1058_RS09880at 768.750 kb on + strandat 769.466 kb on + strandat 769.466 kb on + strandat 769.466 kb on + strandat 769.495 kb on + strand, within HMPREF1058_RS09870at 769.495 kb on + strand, within HMPREF1058_RS09870at 769.495 kb on + strand, within HMPREF1058_RS09870at 769.495 kb on + strand, within HMPREF1058_RS09870at 769.583 kb on + strand, within HMPREF1058_RS09870at 769.629 kb on + strand, within HMPREF1058_RS09870at 769.891 kb on + strand, within HMPREF1058_RS09865at 769.891 kb on + strand, within HMPREF1058_RS09865at 770.292 kb on + strand, within HMPREF1058_RS09860at 770.427 kb on + strand, within HMPREF1058_RS09860

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; day6
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768,035 + HMPREF1058_RS0119685 0.43 -2.2
768,223 + -2.3
768,223 + +0.6
768,223 + +0.5
768,418 + HMPREF1058_RS09880 0.59 -0.5
768,501 - HMPREF1058_RS09880 0.86 -0.7
768,750 + +0.2
769,466 + +2.5
769,466 + +0.3
769,466 + +1.1
769,495 + HMPREF1058_RS09870 0.13 -0.7
769,495 + HMPREF1058_RS09870 0.13 -0.8
769,495 + HMPREF1058_RS09870 0.13 +1.0
769,495 + HMPREF1058_RS09870 0.13 -4.4
769,583 + HMPREF1058_RS09870 0.49 +0.4
769,629 + HMPREF1058_RS09870 0.68 +0.7
769,891 + HMPREF1058_RS09865 0.48 -3.2
769,891 + HMPREF1058_RS09865 0.48 -0.7
770,292 + HMPREF1058_RS09860 0.49 -1.2
770,427 + HMPREF1058_RS09860 0.80 +1.3

Or see this region's nucleotide sequence