Strain Fitness in Parabacteroides merdae CL09T00C40 around HMPREF1078_RS17540

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; 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_RS17535 and HMPREF1078_RS17540 are separated by 81 nucleotidesHMPREF1078_RS17540 and HMPREF1078_RS17545 are separated by 26 nucleotides HMPREF1078_RS17535: HMPREF1078_RS17535 - CHC2 zinc finger domain-containing protein, at 59,188 to 60,471 _RS17535 HMPREF1078_RS17540: HMPREF1078_RS17540 - glycosyltransferase family 2 protein, at 60,553 to 61,314 _RS17540 HMPREF1078_RS17545: HMPREF1078_RS17545 - YfhO family protein, at 61,341 to 63,860 _RS17545 Position (kb) 60 61 62Strain fitness (log2 ratio) -6 -5 -4 -3 -2 -1 0 1 2at 59.668 kb on + strand, within HMPREF1078_RS17535at 59.668 kb on + strand, within HMPREF1078_RS17535at 59.669 kb on - strand, within HMPREF1078_RS17535at 59.701 kb on + strand, within HMPREF1078_RS17535at 59.854 kb on + strand, within HMPREF1078_RS17535at 59.882 kb on - strand, within HMPREF1078_RS17535at 59.966 kb on - strand, within HMPREF1078_RS17535at 60.006 kb on + strand, within HMPREF1078_RS17535at 60.066 kb on + strand, within HMPREF1078_RS17535at 60.066 kb on + strand, within HMPREF1078_RS17535at 60.067 kb on - strand, within HMPREF1078_RS17535at 60.067 kb on - strand, within HMPREF1078_RS17535at 60.390 kb on - strandat 60.399 kb on - strandat 60.540 kb on - strandat 60.540 kb on - strandat 60.545 kb on + strandat 60.545 kb on + strandat 60.545 kb on + strandat 60.549 kb on + strandat 60.552 kb on + strandat 60.560 kb on + strandat 60.560 kb on + strandat 60.561 kb on - strandat 60.582 kb on - strandat 60.592 kb on + strandat 60.592 kb on + strandat 60.592 kb on + strandat 60.592 kb on + strandat 60.593 kb on - strandat 60.593 kb on - strandat 60.593 kb on - strandat 60.593 kb on - strandat 60.593 kb on - strandat 60.593 kb on - strandat 60.594 kb on + strandat 60.663 kb on + strand, within HMPREF1078_RS17540at 60.663 kb on + strand, within HMPREF1078_RS17540at 60.664 kb on - strand, within HMPREF1078_RS17540at 60.704 kb on + strand, within HMPREF1078_RS17540at 60.715 kb on + strand, within HMPREF1078_RS17540at 60.763 kb on + strand, within HMPREF1078_RS17540at 60.763 kb on + strand, within HMPREF1078_RS17540at 60.763 kb on + strand, within HMPREF1078_RS17540at 60.763 kb on + strand, within HMPREF1078_RS17540at 60.763 kb on + strand, within HMPREF1078_RS17540at 60.764 kb on - strand, within HMPREF1078_RS17540at 60.764 kb on - strand, within HMPREF1078_RS17540at 60.764 kb on - strand, within HMPREF1078_RS17540at 60.764 kb on - strand, within HMPREF1078_RS17540at 60.764 kb on - strand, within HMPREF1078_RS17540at 60.764 kb on - strand, within HMPREF1078_RS17540at 60.764 kb on - strand, within HMPREF1078_RS17540at 60.918 kb on + strand, within HMPREF1078_RS17540at 61.057 kb on + strand, within HMPREF1078_RS17540at 61.058 kb on - strand, within HMPREF1078_RS17540at 61.099 kb on - strand, within HMPREF1078_RS17540at 61.131 kb on + strand, within HMPREF1078_RS17540at 61.210 kb on + strand, within HMPREF1078_RS17540at 61.211 kb on - strand, within HMPREF1078_RS17540at 61.211 kb on - strand, within HMPREF1078_RS17540at 61.211 kb on - strand, within HMPREF1078_RS17540at 61.228 kb on + strand, within HMPREF1078_RS17540at 61.231 kb on + strand, within HMPREF1078_RS17540at 61.231 kb on + strand, within HMPREF1078_RS17540at 61.338 kb on + strandat 61.338 kb on + strandat 61.338 kb on + strandat 61.338 kb on + strandat 61.338 kb on + strandat 61.338 kb on + strandat 61.338 kb on + strandat 61.340 kb on + strandat 61.340 kb on + strandat 62.302 kb on - strand, within HMPREF1078_RS17545

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day3
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59,668 + HMPREF1078_RS17535 0.37 +1.2
59,668 + HMPREF1078_RS17535 0.37 +0.5
59,669 - HMPREF1078_RS17535 0.37 +0.3
59,701 + HMPREF1078_RS17535 0.40 +2.3
59,854 + HMPREF1078_RS17535 0.52 +2.6
59,882 - HMPREF1078_RS17535 0.54 +0.4
59,966 - HMPREF1078_RS17535 0.61 +1.5
60,006 + HMPREF1078_RS17535 0.64 -0.1
60,066 + HMPREF1078_RS17535 0.68 +0.4
60,066 + HMPREF1078_RS17535 0.68 +2.0
60,067 - HMPREF1078_RS17535 0.68 -0.8
60,067 - HMPREF1078_RS17535 0.68 +1.8
60,390 - -0.2
60,399 - -4.2
60,540 - +0.1
60,540 - -2.3
60,545 + +0.2
60,545 + +1.2
60,545 + +0.7
60,549 + +0.4
60,552 + -0.1
60,560 + -3.0
60,560 + -3.7
60,561 - -0.5
60,582 - +0.5
60,592 + -4.2
60,592 + -4.5
60,592 + -4.3
60,592 + -2.5
60,593 - -1.6
60,593 - -0.9
60,593 - -0.7
60,593 - -0.7
60,593 - -1.3
60,593 - -1.2
60,594 + -4.6
60,663 + HMPREF1078_RS17540 0.14 -5.2
60,663 + HMPREF1078_RS17540 0.14 -2.2
60,664 - HMPREF1078_RS17540 0.15 -0.5
60,704 + HMPREF1078_RS17540 0.20 -2.0
60,715 + HMPREF1078_RS17540 0.21 -4.7
60,763 + HMPREF1078_RS17540 0.28 -5.7
60,763 + HMPREF1078_RS17540 0.28 -4.2
60,763 + HMPREF1078_RS17540 0.28 -4.2
60,763 + HMPREF1078_RS17540 0.28 -4.0
60,763 + HMPREF1078_RS17540 0.28 -3.9
60,764 - HMPREF1078_RS17540 0.28 -0.7
60,764 - HMPREF1078_RS17540 0.28 -2.1
60,764 - HMPREF1078_RS17540 0.28 -1.2
60,764 - HMPREF1078_RS17540 0.28 -1.7
60,764 - HMPREF1078_RS17540 0.28 -2.5
60,764 - HMPREF1078_RS17540 0.28 -2.8
60,764 - HMPREF1078_RS17540 0.28 -1.8
60,918 + HMPREF1078_RS17540 0.48 -3.2
61,057 + HMPREF1078_RS17540 0.66 -3.3
61,058 - HMPREF1078_RS17540 0.66 -1.5
61,099 - HMPREF1078_RS17540 0.72 -0.9
61,131 + HMPREF1078_RS17540 0.76 -5.8
61,210 + HMPREF1078_RS17540 0.86 -3.3
61,211 - HMPREF1078_RS17540 0.86 -0.2
61,211 - HMPREF1078_RS17540 0.86 -0.2
61,211 - HMPREF1078_RS17540 0.86 +0.1
61,228 + HMPREF1078_RS17540 0.89 -3.1
61,231 + HMPREF1078_RS17540 0.89 -3.5
61,231 + HMPREF1078_RS17540 0.89 -3.6
61,338 + -0.3
61,338 + -1.9
61,338 + -3.7
61,338 + -0.9
61,338 + -3.4
61,338 + -3.6
61,338 + -3.9
61,340 + -1.5
61,340 + -4.5
62,302 - HMPREF1078_RS17545 0.38 -0.7

Or see this region's nucleotide sequence