Strain Fitness in Parabacteroides merdae CL09T00C40 around HMPREF1078_RS04685

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; day3

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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_RS04680 and HMPREF1078_RS04685 are separated by 12 nucleotidesHMPREF1078_RS04685 and HMPREF1078_RS04690 are separated by 14 nucleotidesHMPREF1078_RS04690 and HMPREF1078_RS04695 are separated by 91 nucleotides HMPREF1078_RS04680: HMPREF1078_RS04680 - FtsX-like permease family protein, at 180,519 to 181,754 _RS04680 HMPREF1078_RS04685: HMPREF1078_RS04685 - 30S ribosome-binding factor RbfA, at 181,767 to 182,102 _RS04685 HMPREF1078_RS04690: HMPREF1078_RS04690 - O-methyltransferase, at 182,117 to 182,740 _RS04690 HMPREF1078_RS04695: HMPREF1078_RS04695 - pyruvate kinase, at 182,832 to 184,283 _RS04695 Position (kb) 181 182 183Strain fitness (log2 ratio) -4 -3 -2 -1 0 1at 181.800 kb on - strandat 181.802 kb on - strand, within HMPREF1078_RS04685at 182.206 kb on + strand, within HMPREF1078_RS04690at 182.212 kb on + strand, within HMPREF1078_RS04690at 182.233 kb on + strand, within HMPREF1078_RS04690at 182.325 kb on + strand, within HMPREF1078_RS04690at 182.395 kb on + strand, within HMPREF1078_RS04690at 182.423 kb on + strand, within HMPREF1078_RS04690at 182.424 kb on - strand, within HMPREF1078_RS04690at 182.424 kb on - strand, within HMPREF1078_RS04690at 182.424 kb on - strand, within HMPREF1078_RS04690at 182.429 kb on - strand, within HMPREF1078_RS04690at 182.429 kb on - strand, within HMPREF1078_RS04690at 182.497 kb on + strand, within HMPREF1078_RS04690at 182.533 kb on + strand, within HMPREF1078_RS04690at 182.534 kb on - strand, within HMPREF1078_RS04690at 182.534 kb on - strand, within HMPREF1078_RS04690at 182.542 kb on + strand, within HMPREF1078_RS04690at 182.542 kb on + strand, within HMPREF1078_RS04690at 182.542 kb on + strand, within HMPREF1078_RS04690at 182.542 kb on + strand, within HMPREF1078_RS04690at 182.543 kb on - strand, within HMPREF1078_RS04690at 182.547 kb on + strand, within HMPREF1078_RS04690at 182.548 kb on - strand, within HMPREF1078_RS04690at 182.555 kb on - strand, within HMPREF1078_RS04690at 182.556 kb on + strand, within HMPREF1078_RS04690at 182.556 kb on + strand, within HMPREF1078_RS04690at 182.556 kb on + strand, within HMPREF1078_RS04690at 182.556 kb on + strand, within HMPREF1078_RS04690at 182.556 kb on + strand, within HMPREF1078_RS04690at 182.557 kb on - strand, within HMPREF1078_RS04690at 182.557 kb on - strand, within HMPREF1078_RS04690at 182.560 kb on + strand, within HMPREF1078_RS04690at 182.561 kb on - strand, within HMPREF1078_RS04690at 182.609 kb on - strand, within HMPREF1078_RS04690at 182.612 kb on + strand, within HMPREF1078_RS04690at 182.722 kb on + strandat 182.723 kb on - strandat 182.723 kb on - strandat 182.724 kb on + strandat 182.724 kb on + strandat 182.725 kb on - strandat 182.732 kb on + strandat 182.759 kb on - strandat 182.773 kb on - strandat 182.779 kb on + strandat 182.808 kb on - strandat 182.808 kb on - strandat 182.833 kb on + strandat 182.834 kb on - strandat 182.857 kb on + strandat 182.857 kb on + strandat 182.858 kb on - strandat 182.878 kb on - strandat 182.878 kb on - strandat 182.895 kb on - strandat 182.895 kb on - strandat 183.004 kb on + strand, within HMPREF1078_RS04695at 183.011 kb on - strand, within HMPREF1078_RS04695at 183.031 kb on + strand, within HMPREF1078_RS04695at 183.032 kb on - strand, within HMPREF1078_RS04695at 183.032 kb on - strand, within HMPREF1078_RS04695at 183.074 kb on + strand, within HMPREF1078_RS04695at 183.075 kb on - strand, within HMPREF1078_RS04695at 183.075 kb on - strand, within HMPREF1078_RS04695

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; day3
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181,800 - -1.9
181,802 - HMPREF1078_RS04685 0.10 -4.3
182,206 + HMPREF1078_RS04690 0.14 -1.0
182,212 + HMPREF1078_RS04690 0.15 +0.1
182,233 + HMPREF1078_RS04690 0.19 -0.8
182,325 + HMPREF1078_RS04690 0.33 -0.1
182,395 + HMPREF1078_RS04690 0.45 -0.6
182,423 + HMPREF1078_RS04690 0.49 +1.3
182,424 - HMPREF1078_RS04690 0.49 +0.8
182,424 - HMPREF1078_RS04690 0.49 +1.4
182,424 - HMPREF1078_RS04690 0.49 -1.2
182,429 - HMPREF1078_RS04690 0.50 +0.3
182,429 - HMPREF1078_RS04690 0.50 -1.8
182,497 + HMPREF1078_RS04690 0.61 +1.7
182,533 + HMPREF1078_RS04690 0.67 -1.6
182,534 - HMPREF1078_RS04690 0.67 -0.1
182,534 - HMPREF1078_RS04690 0.67 +1.1
182,542 + HMPREF1078_RS04690 0.68 -2.1
182,542 + HMPREF1078_RS04690 0.68 +0.8
182,542 + HMPREF1078_RS04690 0.68 -0.3
182,542 + HMPREF1078_RS04690 0.68 -0.2
182,543 - HMPREF1078_RS04690 0.68 +0.9
182,547 + HMPREF1078_RS04690 0.69 -1.1
182,548 - HMPREF1078_RS04690 0.69 -0.5
182,555 - HMPREF1078_RS04690 0.70 +0.0
182,556 + HMPREF1078_RS04690 0.70 -1.6
182,556 + HMPREF1078_RS04690 0.70 +0.4
182,556 + HMPREF1078_RS04690 0.70 -1.8
182,556 + HMPREF1078_RS04690 0.70 -0.7
182,556 + HMPREF1078_RS04690 0.70 -1.9
182,557 - HMPREF1078_RS04690 0.71 +0.5
182,557 - HMPREF1078_RS04690 0.71 -3.6
182,560 + HMPREF1078_RS04690 0.71 -0.2
182,561 - HMPREF1078_RS04690 0.71 +0.0
182,609 - HMPREF1078_RS04690 0.79 +1.3
182,612 + HMPREF1078_RS04690 0.79 -0.3
182,722 + -1.2
182,723 - -1.4
182,723 - -1.1
182,724 + -0.3
182,724 + +0.7
182,725 - +0.1
182,732 + -0.1
182,759 - -1.8
182,773 - -0.6
182,779 + -1.2
182,808 - +0.1
182,808 - -0.6
182,833 + -0.3
182,834 - -1.1
182,857 + -2.8
182,857 + -0.1
182,858 - -0.9
182,878 - -0.7
182,878 - -1.5
182,895 - -0.8
182,895 - -1.4
183,004 + HMPREF1078_RS04695 0.12 +0.3
183,011 - HMPREF1078_RS04695 0.12 -3.0
183,031 + HMPREF1078_RS04695 0.14 -0.6
183,032 - HMPREF1078_RS04695 0.14 -1.6
183,032 - HMPREF1078_RS04695 0.14 -1.6
183,074 + HMPREF1078_RS04695 0.17 -0.1
183,075 - HMPREF1078_RS04695 0.17 -0.1
183,075 - HMPREF1078_RS04695 0.17 +0.9

Or see this region's nucleotide sequence