Strain Fitness in Parabacteroides merdae CL09T00C40 around HMPREF1078_RS04555

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; day4

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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_RS04545 and HMPREF1078_RS04550 are separated by 126 nucleotidesHMPREF1078_RS04550 and HMPREF1078_RS04555 are separated by 2 nucleotidesHMPREF1078_RS04555 and HMPREF1078_RS04560 are separated by 315 nucleotides HMPREF1078_RS04545: HMPREF1078_RS04545 - 5'/3'-nucleotidase SurE, at 141,990 to 142,766 _RS04545 HMPREF1078_RS04550: HMPREF1078_RS04550 - response regulator transcription factor, at 142,893 to 143,624 _RS04550 HMPREF1078_RS04555: HMPREF1078_RS04555 - HAMP domain-containing sensor histidine kinase, at 143,627 to 145,180 _RS04555 HMPREF1078_RS04560: HMPREF1078_RS04560 - 1-acyl-sn-glycerol-3-phosphate acyltransferase, at 145,496 to 146,320 _RS04560 Position (kb) 143 144 145 146Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 142.767 kb on - strandat 142.791 kb on - strandat 142.793 kb on - strandat 142.810 kb on + strandat 142.821 kb on + strandat 142.830 kb on + strandat 142.830 kb on + strandat 142.831 kb on - strandat 142.834 kb on + strandat 142.834 kb on + strandat 142.834 kb on + strandat 142.835 kb on - strandat 142.835 kb on - strandat 142.850 kb on - strandat 142.891 kb on - strandat 142.895 kb on - strandat 142.895 kb on - strandat 143.639 kb on - strandat 143.639 kb on - strandat 143.646 kb on - strandat 143.646 kb on - strandat 143.651 kb on - strandat 143.651 kb on - strandat 143.697 kb on - strandat 143.702 kb on - strandat 143.718 kb on - strandat 143.721 kb on - strandat 143.726 kb on - strandat 143.734 kb on - strandat 143.734 kb on - strandat 143.955 kb on - strand, within HMPREF1078_RS04555at 143.983 kb on - strand, within HMPREF1078_RS04555at 143.983 kb on - strand, within HMPREF1078_RS04555at 143.983 kb on - strand, within HMPREF1078_RS04555at 143.983 kb on - strand, within HMPREF1078_RS04555at 143.983 kb on - strand, within HMPREF1078_RS04555at 144.031 kb on - strand, within HMPREF1078_RS04555at 144.031 kb on - strand, within HMPREF1078_RS04555at 144.056 kb on - strand, within HMPREF1078_RS04555at 144.056 kb on - strand, within HMPREF1078_RS04555at 144.200 kb on - strand, within HMPREF1078_RS04555at 144.353 kb on - strand, within HMPREF1078_RS04555at 144.355 kb on - strand, within HMPREF1078_RS04555at 144.384 kb on - strand, within HMPREF1078_RS04555at 144.408 kb on - strand, within HMPREF1078_RS04555at 144.413 kb on - strand, within HMPREF1078_RS04555at 144.436 kb on - strand, within HMPREF1078_RS04555at 144.525 kb on - strand, within HMPREF1078_RS04555at 144.536 kb on - strand, within HMPREF1078_RS04555at 144.631 kb on - strand, within HMPREF1078_RS04555at 144.635 kb on - strand, within HMPREF1078_RS04555at 144.773 kb on - strand, within HMPREF1078_RS04555at 144.782 kb on - strand, within HMPREF1078_RS04555at 144.782 kb on - strand, within HMPREF1078_RS04555at 144.787 kb on + strand, within HMPREF1078_RS04555at 144.788 kb on - strand, within HMPREF1078_RS04555at 144.792 kb on - strand, within HMPREF1078_RS04555at 144.796 kb on + strand, within HMPREF1078_RS04555at 144.797 kb on - strand, within HMPREF1078_RS04555at 144.848 kb on - strand, within HMPREF1078_RS04555at 144.859 kb on + strand, within HMPREF1078_RS04555at 144.860 kb on - strand, within HMPREF1078_RS04555at 144.860 kb on - strand, within HMPREF1078_RS04555at 144.953 kb on + strand, within HMPREF1078_RS04555at 144.954 kb on - strand, within HMPREF1078_RS04555at 144.957 kb on + strand, within HMPREF1078_RS04555at 144.957 kb on + strand, within HMPREF1078_RS04555at 144.957 kb on + strand, within HMPREF1078_RS04555at 144.958 kb on - strand, within HMPREF1078_RS04555at 145.094 kb on - strandat 145.094 kb on - strandat 145.097 kb on + strandat 145.098 kb on - strandat 145.098 kb on - strandat 145.098 kb on - strandat 145.098 kb on - strandat 145.102 kb on - strandat 145.163 kb on + strandat 145.180 kb on + strandat 145.186 kb on + strandat 145.187 kb on - strandat 145.308 kb on + strandat 145.331 kb on + strandat 145.331 kb on + strandat 145.332 kb on - strandat 145.332 kb on - strandat 145.332 kb on - strandat 145.351 kb on - strandat 145.351 kb on - strandat 145.358 kb on + strandat 145.374 kb on + strandat 145.384 kb on + strandat 145.396 kb on + strandat 145.396 kb on + strandat 145.396 kb on + strandat 145.397 kb on - strandat 145.424 kb on + strandat 145.461 kb on - strandat 145.466 kb on + strandat 145.466 kb on + strandat 145.481 kb on + strandat 145.501 kb on - strandat 145.514 kb on - strandat 145.521 kb on + strandat 145.537 kb on - strandat 145.539 kb on + strandat 145.603 kb on + strand, within HMPREF1078_RS04560at 145.603 kb on + strand, within HMPREF1078_RS04560at 145.714 kb on - strand, within HMPREF1078_RS04560at 145.727 kb on - strand, within HMPREF1078_RS04560at 145.749 kb on + strand, within HMPREF1078_RS04560at 145.749 kb on + strand, within HMPREF1078_RS04560at 145.749 kb on + strand, within HMPREF1078_RS04560at 145.749 kb on + strand, within HMPREF1078_RS04560at 145.750 kb on - strand, within HMPREF1078_RS04560at 145.750 kb on - strand, within HMPREF1078_RS04560at 145.947 kb on - strand, within HMPREF1078_RS04560at 145.947 kb on - strand, within HMPREF1078_RS04560at 145.986 kb on + strand, within HMPREF1078_RS04560at 146.013 kb on + strand, within HMPREF1078_RS04560at 146.099 kb on - strand, within HMPREF1078_RS04560at 146.159 kb on + strand, within HMPREF1078_RS04560at 146.160 kb on - strand, within HMPREF1078_RS04560

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; day4
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142,767 - -0.3
142,791 - -1.3
142,793 - +0.4
142,810 + -1.5
142,821 + +0.3
142,830 + -1.7
142,830 + -2.5
142,831 - -1.5
142,834 + +0.2
142,834 + -3.1
142,834 + -1.2
142,835 - -3.2
142,835 - -2.6
142,850 - -3.6
142,891 - -3.3
142,895 - -3.7
142,895 - -3.9
143,639 - -1.1
143,639 - -2.6
143,646 - -2.8
143,646 - +1.7
143,651 - -1.7
143,651 - -1.2
143,697 - +0.1
143,702 - -2.5
143,718 - -3.8
143,721 - -2.2
143,726 - -2.3
143,734 - -1.9
143,734 - -3.6
143,955 - HMPREF1078_RS04555 0.21 -1.7
143,983 - HMPREF1078_RS04555 0.23 -2.2
143,983 - HMPREF1078_RS04555 0.23 -2.6
143,983 - HMPREF1078_RS04555 0.23 -3.5
143,983 - HMPREF1078_RS04555 0.23 -4.1
143,983 - HMPREF1078_RS04555 0.23 -3.1
144,031 - HMPREF1078_RS04555 0.26 -3.6
144,031 - HMPREF1078_RS04555 0.26 -3.6
144,056 - HMPREF1078_RS04555 0.28 -3.6
144,056 - HMPREF1078_RS04555 0.28 -4.2
144,200 - HMPREF1078_RS04555 0.37 -3.9
144,353 - HMPREF1078_RS04555 0.47 -0.5
144,355 - HMPREF1078_RS04555 0.47 -2.1
144,384 - HMPREF1078_RS04555 0.49 +0.1
144,408 - HMPREF1078_RS04555 0.50 -2.5
144,413 - HMPREF1078_RS04555 0.51 -1.5
144,436 - HMPREF1078_RS04555 0.52 +1.1
144,525 - HMPREF1078_RS04555 0.58 -1.2
144,536 - HMPREF1078_RS04555 0.58 -1.5
144,631 - HMPREF1078_RS04555 0.65 -2.9
144,635 - HMPREF1078_RS04555 0.65 -4.1
144,773 - HMPREF1078_RS04555 0.74 -2.5
144,782 - HMPREF1078_RS04555 0.74 -2.6
144,782 - HMPREF1078_RS04555 0.74 +0.1
144,787 + HMPREF1078_RS04555 0.75 +0.1
144,788 - HMPREF1078_RS04555 0.75 -3.0
144,792 - HMPREF1078_RS04555 0.75 -0.9
144,796 + HMPREF1078_RS04555 0.75 +0.1
144,797 - HMPREF1078_RS04555 0.75 -0.9
144,848 - HMPREF1078_RS04555 0.79 -1.9
144,859 + HMPREF1078_RS04555 0.79 +1.1
144,860 - HMPREF1078_RS04555 0.79 -1.9
144,860 - HMPREF1078_RS04555 0.79 -3.3
144,953 + HMPREF1078_RS04555 0.85 +1.1
144,954 - HMPREF1078_RS04555 0.85 -2.5
144,957 + HMPREF1078_RS04555 0.86 +0.1
144,957 + HMPREF1078_RS04555 0.86 +1.1
144,957 + HMPREF1078_RS04555 0.86 +0.1
144,958 - HMPREF1078_RS04555 0.86 -1.2
145,094 - -3.6
145,094 - -3.4
145,097 + -0.5
145,098 - -3.6
145,098 - -4.1
145,098 - -3.0
145,098 - -2.1
145,102 - -1.7
145,163 + -0.9
145,180 + +0.1
145,186 + +1.1
145,187 - -0.6
145,308 + -2.6
145,331 + +0.9
145,331 + +0.1
145,332 - +0.6
145,332 - +0.7
145,332 - -1.3
145,351 - -0.3
145,351 - +0.6
145,358 + -0.1
145,374 + +0.9
145,384 + -1.8
145,396 + -1.6
145,396 + -0.5
145,396 + +0.5
145,397 - -1.7
145,424 + -0.9
145,461 - -0.2
145,466 + -0.7
145,466 + +0.2
145,481 + +0.5
145,501 - +2.0
145,514 - +2.1
145,521 + -0.8
145,537 - +0.1
145,539 + +0.4
145,603 + HMPREF1078_RS04560 0.13 +0.4
145,603 + HMPREF1078_RS04560 0.13 -0.0
145,714 - HMPREF1078_RS04560 0.26 +2.1
145,727 - HMPREF1078_RS04560 0.28 +0.1
145,749 + HMPREF1078_RS04560 0.31 +0.1
145,749 + HMPREF1078_RS04560 0.31 +0.1
145,749 + HMPREF1078_RS04560 0.31 +0.4
145,749 + HMPREF1078_RS04560 0.31 +2.9
145,750 - HMPREF1078_RS04560 0.31 -0.1
145,750 - HMPREF1078_RS04560 0.31 -0.0
145,947 - HMPREF1078_RS04560 0.55 -0.7
145,947 - HMPREF1078_RS04560 0.55 +0.1
145,986 + HMPREF1078_RS04560 0.59 +0.2
146,013 + HMPREF1078_RS04560 0.63 +0.4
146,099 - HMPREF1078_RS04560 0.73 -1.3
146,159 + HMPREF1078_RS04560 0.80 -0.0
146,160 - HMPREF1078_RS04560 0.80 +0.4

Or see this region's nucleotide sequence