Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS05940

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_RS05945 and HMPREF1058_RS05940 are separated by 4 nucleotidesHMPREF1058_RS05940 and HMPREF1058_RS05935 are separated by 28 nucleotidesHMPREF1058_RS05935 and HMPREF1058_RS05930 are separated by 58 nucleotides HMPREF1058_RS05945: HMPREF1058_RS05945 - DUF4836 family protein, at 43,951 to 45,483 _RS05945 HMPREF1058_RS05940: HMPREF1058_RS05940 - 16S rRNA (uracil(1498)-N(3))-methyltransferase, at 45,488 to 46,189 _RS05940 HMPREF1058_RS05935: HMPREF1058_RS05935 - bifunctional nuclease family protein, at 46,218 to 46,784 _RS05935 HMPREF1058_RS05930: HMPREF1058_RS05930 - MFS transporter, at 46,843 to 48,120 _RS05930 Position (kb) 45 46 47Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3 4at 44.509 kb on + strand, within HMPREF1058_RS05945at 44.563 kb on - strand, within HMPREF1058_RS05945at 44.604 kb on + strand, within HMPREF1058_RS05945at 44.607 kb on + strand, within HMPREF1058_RS05945at 44.628 kb on + strand, within HMPREF1058_RS05945at 44.642 kb on + strand, within HMPREF1058_RS05945at 44.697 kb on + strand, within HMPREF1058_RS05945at 44.698 kb on - strand, within HMPREF1058_RS05945at 44.698 kb on - strand, within HMPREF1058_RS05945at 44.856 kb on + strand, within HMPREF1058_RS05945at 44.856 kb on + strand, within HMPREF1058_RS05945at 44.856 kb on + strand, within HMPREF1058_RS05945at 44.857 kb on - strand, within HMPREF1058_RS05945at 44.917 kb on + strand, within HMPREF1058_RS05945at 44.991 kb on + strandat 44.995 kb on - strand, within HMPREF1058_RS05945at 45.021 kb on + strand, within HMPREF1058_RS05945at 45.022 kb on - strand, within HMPREF1058_RS05945at 45.058 kb on - strand, within HMPREF1058_RS05945at 45.088 kb on + strand, within HMPREF1058_RS05945at 45.154 kb on + strand, within HMPREF1058_RS05945at 45.169 kb on - strand, within HMPREF1058_RS05945at 45.189 kb on + strand, within HMPREF1058_RS05945at 45.189 kb on + strand, within HMPREF1058_RS05945at 45.189 kb on + strand, within HMPREF1058_RS05945at 45.190 kb on - strand, within HMPREF1058_RS05945at 45.190 kb on - strand, within HMPREF1058_RS05945at 45.190 kb on - strand, within HMPREF1058_RS05945at 45.191 kb on + strand, within HMPREF1058_RS05945at 45.192 kb on - strand, within HMPREF1058_RS05945at 45.258 kb on - strand, within HMPREF1058_RS05945at 45.397 kb on - strandat 45.408 kb on - strandat 45.471 kb on + strandat 45.484 kb on - strandat 45.503 kb on + strandat 45.514 kb on + strandat 45.514 kb on + strandat 45.592 kb on + strand, within HMPREF1058_RS05940at 45.669 kb on - strand, within HMPREF1058_RS05940at 45.751 kb on + strand, within HMPREF1058_RS05940at 45.752 kb on - strand, within HMPREF1058_RS05940at 45.961 kb on + strand, within HMPREF1058_RS05940at 46.047 kb on - strand, within HMPREF1058_RS05940at 46.085 kb on + strand, within HMPREF1058_RS05940at 46.164 kb on - strandat 46.164 kb on - strandat 46.189 kb on + strandat 46.189 kb on + strandat 46.189 kb on + strandat 46.189 kb on + strandat 46.189 kb on + strandat 46.190 kb on - strandat 46.212 kb on + strandat 46.212 kb on + strandat 46.213 kb on - strandat 46.224 kb on + strandat 46.224 kb on + strandat 46.225 kb on - strandat 46.225 kb on - strandat 46.350 kb on + strand, within HMPREF1058_RS05935at 46.351 kb on - strand, within HMPREF1058_RS05935at 46.351 kb on - strand, within HMPREF1058_RS05935at 46.419 kb on - strand, within HMPREF1058_RS05935at 46.420 kb on + strand, within HMPREF1058_RS05935at 46.421 kb on - strand, within HMPREF1058_RS05935at 46.476 kb on + strand, within HMPREF1058_RS05935at 46.482 kb on - strand, within HMPREF1058_RS05935at 46.514 kb on - strand, within HMPREF1058_RS05935at 46.514 kb on - strand, within HMPREF1058_RS05935at 46.542 kb on - strand, within HMPREF1058_RS05935at 46.542 kb on - strand, within HMPREF1058_RS05935at 46.543 kb on + strand, within HMPREF1058_RS05935at 46.544 kb on - strand, within HMPREF1058_RS05935at 46.545 kb on + strand, within HMPREF1058_RS05935at 46.546 kb on - strand, within HMPREF1058_RS05935at 46.551 kb on + strand, within HMPREF1058_RS05935at 46.552 kb on - strand, within HMPREF1058_RS05935at 46.625 kb on + strand, within HMPREF1058_RS05935at 46.628 kb on - strand, within HMPREF1058_RS05935at 46.646 kb on + strand, within HMPREF1058_RS05935at 46.650 kb on - strand, within HMPREF1058_RS05935at 46.676 kb on + strand, within HMPREF1058_RS05935at 46.677 kb on - strand, within HMPREF1058_RS05935at 46.754 kb on + strandat 46.755 kb on - strandat 46.774 kb on - strandat 46.774 kb on - strandat 46.789 kb on + strandat 46.841 kb on + strandat 46.867 kb on - strandat 46.868 kb on + strandat 46.868 kb on + strandat 46.868 kb on + strandat 47.077 kb on + strand, within HMPREF1058_RS05930at 47.141 kb on + strand, within HMPREF1058_RS05930

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse20; day9
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44,509 + HMPREF1058_RS05945 0.36 +2.0
44,563 - HMPREF1058_RS05945 0.40 +1.9
44,604 + HMPREF1058_RS05945 0.43 +1.9
44,607 + HMPREF1058_RS05945 0.43 +0.2
44,628 + HMPREF1058_RS05945 0.44 -0.6
44,642 + HMPREF1058_RS05945 0.45 +1.2
44,697 + HMPREF1058_RS05945 0.49 +0.2
44,698 - HMPREF1058_RS05945 0.49 +1.2
44,698 - HMPREF1058_RS05945 0.49 +0.8
44,856 + HMPREF1058_RS05945 0.59 +0.7
44,856 + HMPREF1058_RS05945 0.59 -1.6
44,856 + HMPREF1058_RS05945 0.59 -0.1
44,857 - HMPREF1058_RS05945 0.59 +1.3
44,917 + HMPREF1058_RS05945 0.63 +1.3
44,991 + +1.3
44,995 - HMPREF1058_RS05945 0.68 +2.5
45,021 + HMPREF1058_RS05945 0.70 +0.8
45,022 - HMPREF1058_RS05945 0.70 +2.5
45,058 - HMPREF1058_RS05945 0.72 +2.5
45,088 + HMPREF1058_RS05945 0.74 +1.2
45,154 + HMPREF1058_RS05945 0.78 +3.5
45,169 - HMPREF1058_RS05945 0.79 +0.7
45,189 + HMPREF1058_RS05945 0.81 +1.4
45,189 + HMPREF1058_RS05945 0.81 +2.1
45,189 + HMPREF1058_RS05945 0.81 +2.3
45,190 - HMPREF1058_RS05945 0.81 +0.7
45,190 - HMPREF1058_RS05945 0.81 +0.9
45,190 - HMPREF1058_RS05945 0.81 +0.9
45,191 + HMPREF1058_RS05945 0.81 +1.8
45,192 - HMPREF1058_RS05945 0.81 -2.8
45,258 - HMPREF1058_RS05945 0.85 +1.4
45,397 - +0.6
45,408 - -2.1
45,471 + +1.7
45,484 - -0.3
45,503 + +2.8
45,514 + +1.3
45,514 + -1.1
45,592 + HMPREF1058_RS05940 0.15 +3.2
45,669 - HMPREF1058_RS05940 0.26 -3.0
45,751 + HMPREF1058_RS05940 0.37 +0.5
45,752 - HMPREF1058_RS05940 0.38 -3.8
45,961 + HMPREF1058_RS05940 0.67 +1.3
46,047 - HMPREF1058_RS05940 0.80 -0.1
46,085 + HMPREF1058_RS05940 0.85 +0.7
46,164 - -1.9
46,164 - -2.0
46,189 + +0.6
46,189 + +0.9
46,189 + +1.2
46,189 + -0.9
46,189 + +1.3
46,190 - -1.1
46,212 + +0.4
46,212 + +0.2
46,213 - -2.3
46,224 + +2.2
46,224 + +1.4
46,225 - -0.5
46,225 - -3.0
46,350 + HMPREF1058_RS05935 0.23 -0.0
46,351 - HMPREF1058_RS05935 0.23 -0.6
46,351 - HMPREF1058_RS05935 0.23 -2.3
46,419 - HMPREF1058_RS05935 0.35 -2.1
46,420 + HMPREF1058_RS05935 0.36 +0.5
46,421 - HMPREF1058_RS05935 0.36 -0.8
46,476 + HMPREF1058_RS05935 0.46 +1.8
46,482 - HMPREF1058_RS05935 0.47 -0.6
46,514 - HMPREF1058_RS05935 0.52 -0.9
46,514 - HMPREF1058_RS05935 0.52 -2.9
46,542 - HMPREF1058_RS05935 0.57 -3.4
46,542 - HMPREF1058_RS05935 0.57 -4.1
46,543 + HMPREF1058_RS05935 0.57 +1.3
46,544 - HMPREF1058_RS05935 0.57 -2.4
46,545 + HMPREF1058_RS05935 0.58 -1.0
46,546 - HMPREF1058_RS05935 0.58 +0.9
46,551 + HMPREF1058_RS05935 0.59 +4.1
46,552 - HMPREF1058_RS05935 0.59 -2.1
46,625 + HMPREF1058_RS05935 0.72 +1.8
46,628 - HMPREF1058_RS05935 0.72 -2.0
46,646 + HMPREF1058_RS05935 0.75 -0.9
46,650 - HMPREF1058_RS05935 0.76 -1.5
46,676 + HMPREF1058_RS05935 0.81 +3.0
46,677 - HMPREF1058_RS05935 0.81 -1.1
46,754 + +3.4
46,755 - -3.9
46,774 - -1.9
46,774 - +0.4
46,789 + +1.9
46,841 + -0.4
46,867 - -2.2
46,868 + -3.1
46,868 + -0.9
46,868 + +2.0
47,077 + HMPREF1058_RS05930 0.18 +2.6
47,141 + HMPREF1058_RS05930 0.23 +2.1

Or see this region's nucleotide sequence