Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS05935

Experiment: Sucrose 10 mM (C)

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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) 46 47Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1at 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 46.724 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 46.785 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_RS05930at 47.241 kb on + strand, within HMPREF1058_RS05930at 47.242 kb on - strand, within HMPREF1058_RS05930at 47.285 kb on - strand, within HMPREF1058_RS05930at 47.289 kb on + strand, within HMPREF1058_RS05930at 47.289 kb on + strand, within HMPREF1058_RS05930at 47.447 kb on - strand, within HMPREF1058_RS05930at 47.447 kb on - strand, within HMPREF1058_RS05930at 47.457 kb on + strand, within HMPREF1058_RS05930at 47.539 kb on + strand, within HMPREF1058_RS05930at 47.578 kb on + strand, within HMPREF1058_RS05930at 47.613 kb on + strand, within HMPREF1058_RS05930at 47.615 kb on + strand, within HMPREF1058_RS05930at 47.738 kb on + strand, within HMPREF1058_RS05930at 47.774 kb on + strand, within HMPREF1058_RS05930at 47.775 kb on - strand, within HMPREF1058_RS05930at 47.782 kb on + strand, within HMPREF1058_RS05930

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Per-strain Table

Position Strand Gene LocusTag Fraction Sucrose 10 mM (C)
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45,258 - HMPREF1058_RS05945 0.85 -0.2
45,397 - -0.9
45,408 - -0.4
45,471 + +0.6
45,484 - -0.8
45,503 + +0.5
45,514 + +0.0
45,514 + +0.4
45,592 + HMPREF1058_RS05940 0.15 -0.7
45,669 - HMPREF1058_RS05940 0.26 +0.6
45,751 + HMPREF1058_RS05940 0.37 +0.5
45,752 - HMPREF1058_RS05940 0.38 -1.1
45,961 + HMPREF1058_RS05940 0.67 +0.6
46,047 - HMPREF1058_RS05940 0.80 -3.1
46,085 + HMPREF1058_RS05940 0.85 +1.3
46,164 - -1.4
46,164 - +0.0
46,189 + +1.1
46,189 + -0.8
46,189 + +0.5
46,189 + +0.9
46,189 + -0.4
46,190 - +0.0
46,212 + +0.7
46,212 + +0.7
46,213 - -2.4
46,224 + -0.5
46,224 + -0.2
46,225 - -0.1
46,225 - -3.8
46,350 + HMPREF1058_RS05935 0.23 -1.2
46,351 - HMPREF1058_RS05935 0.23 -4.8
46,351 - HMPREF1058_RS05935 0.23 -2.6
46,419 - HMPREF1058_RS05935 0.35 -2.3
46,420 + HMPREF1058_RS05935 0.36 +0.0
46,421 - HMPREF1058_RS05935 0.36 -3.1
46,476 + HMPREF1058_RS05935 0.46 -0.2
46,482 - HMPREF1058_RS05935 0.47 -1.0
46,514 - HMPREF1058_RS05935 0.52 -1.7
46,514 - HMPREF1058_RS05935 0.52 -3.1
46,542 - HMPREF1058_RS05935 0.57 -4.0
46,542 - HMPREF1058_RS05935 0.57 -1.9
46,543 + HMPREF1058_RS05935 0.57 -1.8
46,544 - HMPREF1058_RS05935 0.57 -2.0
46,545 + HMPREF1058_RS05935 0.58 -1.1
46,546 - HMPREF1058_RS05935 0.58 -2.2
46,551 + HMPREF1058_RS05935 0.59 -0.8
46,552 - HMPREF1058_RS05935 0.59 -2.3
46,625 + HMPREF1058_RS05935 0.72 -1.9
46,628 - HMPREF1058_RS05935 0.72 -3.4
46,646 + HMPREF1058_RS05935 0.75 -2.9
46,650 - HMPREF1058_RS05935 0.76 -3.5
46,676 + HMPREF1058_RS05935 0.81 -1.1
46,677 - HMPREF1058_RS05935 0.81 -2.3
46,724 - HMPREF1058_RS05935 0.89 -1.5
46,754 + -2.9
46,755 - -2.3
46,774 - -2.5
46,774 - -1.7
46,785 - -0.4
46,789 + -0.7
46,841 + -1.8
46,867 - -1.2
46,868 + -2.8
46,868 + -2.3
46,868 + -1.2
47,077 + HMPREF1058_RS05930 0.18 -4.3
47,141 + HMPREF1058_RS05930 0.23 -3.0
47,241 + HMPREF1058_RS05930 0.31 -3.6
47,242 - HMPREF1058_RS05930 0.31 -2.8
47,285 - HMPREF1058_RS05930 0.35 -2.0
47,289 + HMPREF1058_RS05930 0.35 -2.1
47,289 + HMPREF1058_RS05930 0.35 -1.0
47,447 - HMPREF1058_RS05930 0.47 -3.9
47,447 - HMPREF1058_RS05930 0.47 -3.4
47,457 + HMPREF1058_RS05930 0.48 -0.9
47,539 + HMPREF1058_RS05930 0.54 -3.2
47,578 + HMPREF1058_RS05930 0.58 -1.4
47,613 + HMPREF1058_RS05930 0.60 -2.3
47,615 + HMPREF1058_RS05930 0.60 -3.8
47,738 + HMPREF1058_RS05930 0.70 -1.8
47,774 + HMPREF1058_RS05930 0.73 -1.5
47,775 - HMPREF1058_RS05930 0.73 -2.5
47,782 + HMPREF1058_RS05930 0.73 -3.7

Or see this region's nucleotide sequence