Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS05715

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day2

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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_RS05720 and HMPREF1058_RS05715 are separated by 16 nucleotidesHMPREF1058_RS05715 and HMPREF1058_RS05710 are separated by 72 nucleotides HMPREF1058_RS05720: HMPREF1058_RS05720 - hypothetical protein, at 93,269 to 94,477 _RS05720 HMPREF1058_RS05715: HMPREF1058_RS05715 - hypothetical protein, at 94,494 to 95,021 _RS05715 HMPREF1058_RS05710: HMPREF1058_RS05710 - virulence RhuM family protein, at 95,094 to 96,089 _RS05710 Position (kb) 94 95 96Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3 4at 93.883 kb on + strand, within HMPREF1058_RS05720at 93.909 kb on - strand, within HMPREF1058_RS05720at 93.909 kb on - strand, within HMPREF1058_RS05720at 93.909 kb on - strand, within HMPREF1058_RS05720at 93.909 kb on - strand, within HMPREF1058_RS05720at 93.980 kb on + strand, within HMPREF1058_RS05720at 94.075 kb on + strand, within HMPREF1058_RS05720at 94.084 kb on + strand, within HMPREF1058_RS05720at 94.085 kb on - strand, within HMPREF1058_RS05720at 94.117 kb on + strand, within HMPREF1058_RS05720at 94.212 kb on - strand, within HMPREF1058_RS05720at 94.401 kb on + strandat 94.482 kb on - strandat 94.482 kb on - strandat 94.595 kb on + strand, within HMPREF1058_RS05715at 94.598 kb on - strand, within HMPREF1058_RS05715at 94.634 kb on - strand, within HMPREF1058_RS05715at 94.634 kb on - strand, within HMPREF1058_RS05715at 94.635 kb on + strandat 94.637 kb on + strand, within HMPREF1058_RS05715at 94.637 kb on + strand, within HMPREF1058_RS05715at 94.637 kb on + strand, within HMPREF1058_RS05715at 94.692 kb on - strand, within HMPREF1058_RS05715at 94.854 kb on - strand, within HMPREF1058_RS05715at 94.958 kb on + strand, within HMPREF1058_RS05715at 94.979 kb on + strandat 94.988 kb on - strandat 94.988 kb on - strandat 95.013 kb on + strandat 95.067 kb on - strandat 95.073 kb on + strandat 95.073 kb on + strandat 95.110 kb on - strandat 95.130 kb on - strandat 95.168 kb on + strandat 95.173 kb on + strandat 95.173 kb on + strandat 95.291 kb on + strand, within HMPREF1058_RS05710at 95.310 kb on - strand, within HMPREF1058_RS05710at 95.312 kb on + strand, within HMPREF1058_RS05710at 95.324 kb on + strand, within HMPREF1058_RS05710at 95.324 kb on + strand, within HMPREF1058_RS05710at 95.325 kb on - strand, within HMPREF1058_RS05710at 95.417 kb on + strand, within HMPREF1058_RS05710at 95.468 kb on + strand, within HMPREF1058_RS05710at 95.486 kb on - strand, within HMPREF1058_RS05710at 95.581 kb on + strand, within HMPREF1058_RS05710at 95.603 kb on - strand, within HMPREF1058_RS05710at 95.603 kb on - strand, within HMPREF1058_RS05710at 95.604 kb on + strand, within HMPREF1058_RS05710at 95.605 kb on - strand, within HMPREF1058_RS05710at 95.605 kb on - strand, within HMPREF1058_RS05710at 95.605 kb on - strand, within HMPREF1058_RS05710at 95.631 kb on - strand, within HMPREF1058_RS05710at 95.855 kb on + strand, within HMPREF1058_RS05710at 95.856 kb on - strand, within HMPREF1058_RS05710at 95.856 kb on - strand, within HMPREF1058_RS05710at 95.857 kb on + strand, within HMPREF1058_RS05710at 95.857 kb on + strand, within HMPREF1058_RS05710at 95.857 kb on + strand, within HMPREF1058_RS05710at 95.857 kb on + strand, within HMPREF1058_RS05710at 95.859 kb on + strand, within HMPREF1058_RS05710at 95.898 kb on + strand, within HMPREF1058_RS05710at 95.913 kb on + strand, within HMPREF1058_RS05710at 95.934 kb on - strand, within HMPREF1058_RS05710

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day2
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93,883 + HMPREF1058_RS05720 0.51 +1.0
93,909 - HMPREF1058_RS05720 0.53 +3.3
93,909 - HMPREF1058_RS05720 0.53 +0.7
93,909 - HMPREF1058_RS05720 0.53 -1.6
93,909 - HMPREF1058_RS05720 0.53 -2.6
93,980 + HMPREF1058_RS05720 0.59 +0.0
94,075 + HMPREF1058_RS05720 0.67 +0.2
94,084 + HMPREF1058_RS05720 0.67 +4.3
94,085 - HMPREF1058_RS05720 0.67 +2.0
94,117 + HMPREF1058_RS05720 0.70 -0.3
94,212 - HMPREF1058_RS05720 0.78 -0.3
94,401 + +0.1
94,482 - -0.7
94,482 - -0.2
94,595 + HMPREF1058_RS05715 0.19 -0.2
94,598 - HMPREF1058_RS05715 0.20 +0.0
94,634 - HMPREF1058_RS05715 0.27 +0.0
94,634 - HMPREF1058_RS05715 0.27 -1.1
94,635 + -1.0
94,637 + HMPREF1058_RS05715 0.27 -1.0
94,637 + HMPREF1058_RS05715 0.27 +0.2
94,637 + HMPREF1058_RS05715 0.27 +0.9
94,692 - HMPREF1058_RS05715 0.38 -0.1
94,854 - HMPREF1058_RS05715 0.68 +0.3
94,958 + HMPREF1058_RS05715 0.88 -1.6
94,979 + -1.6
94,988 - +0.4
94,988 - +0.0
95,013 + +0.9
95,067 - -0.4
95,073 + -2.4
95,073 + +1.0
95,110 - -2.4
95,130 - -0.4
95,168 + -0.3
95,173 + +0.7
95,173 + -3.3
95,291 + HMPREF1058_RS05710 0.20 -0.6
95,310 - HMPREF1058_RS05710 0.22 -0.3
95,312 + HMPREF1058_RS05710 0.22 +0.0
95,324 + HMPREF1058_RS05710 0.23 -1.0
95,324 + HMPREF1058_RS05710 0.23 -1.0
95,325 - HMPREF1058_RS05710 0.23 +0.4
95,417 + HMPREF1058_RS05710 0.32 -1.0
95,468 + HMPREF1058_RS05710 0.38 -0.2
95,486 - HMPREF1058_RS05710 0.39 -1.0
95,581 + HMPREF1058_RS05710 0.49 +1.9
95,603 - HMPREF1058_RS05710 0.51 +0.9
95,603 - HMPREF1058_RS05710 0.51 -0.4
95,604 + HMPREF1058_RS05710 0.51 -0.5
95,605 - HMPREF1058_RS05710 0.51 +2.0
95,605 - HMPREF1058_RS05710 0.51 +0.2
95,605 - HMPREF1058_RS05710 0.51 +0.0
95,631 - HMPREF1058_RS05710 0.54 -0.1
95,855 + HMPREF1058_RS05710 0.76 +0.3
95,856 - HMPREF1058_RS05710 0.77 -2.8
95,856 - HMPREF1058_RS05710 0.77 -2.8
95,857 + HMPREF1058_RS05710 0.77 +0.0
95,857 + HMPREF1058_RS05710 0.77 +1.1
95,857 + HMPREF1058_RS05710 0.77 -2.1
95,857 + HMPREF1058_RS05710 0.77 -1.0
95,859 + HMPREF1058_RS05710 0.77 -1.7
95,898 + HMPREF1058_RS05710 0.81 -0.6
95,913 + HMPREF1058_RS05710 0.82 +0.2
95,934 - HMPREF1058_RS05710 0.84 -1.0

Or see this region's nucleotide sequence