Strain Fitness in Parabacteroides merdae CL09T00C40 around HMPREF1078_RS04700

Experiment: D-Mannose 10 mg/mL (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 ntHMPREF1078_RS04695 and HMPREF1078_RS04700 are separated by 140 nucleotidesHMPREF1078_RS04700 and HMPREF1078_RS04705 are separated by 216 nucleotides HMPREF1078_RS04695: HMPREF1078_RS04695 - pyruvate kinase, at 182,832 to 184,283 _RS04695 HMPREF1078_RS04700: HMPREF1078_RS04700 - type II 3-dehydroquinate dehydratase, at 184,424 to 184,858 _RS04700 HMPREF1078_RS04705: HMPREF1078_RS04705 - site-specific tyrosine recombinase XerD, at 185,075 to 185,980 _RS04705 Position (kb) 184 185Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1at 183.506 kb on + strand, within HMPREF1078_RS04695at 183.528 kb on - strand, within HMPREF1078_RS04695at 183.550 kb on - strand, within HMPREF1078_RS04695at 183.550 kb on - strand, within HMPREF1078_RS04695at 183.590 kb on - strand, within HMPREF1078_RS04695at 183.668 kb on + strand, within HMPREF1078_RS04695at 183.669 kb on - strand, within HMPREF1078_RS04695at 183.669 kb on - strand, within HMPREF1078_RS04695at 183.669 kb on - strand, within HMPREF1078_RS04695at 183.693 kb on - strand, within HMPREF1078_RS04695at 183.699 kb on + strand, within HMPREF1078_RS04695at 183.699 kb on + strand, within HMPREF1078_RS04695at 183.699 kb on + strand, within HMPREF1078_RS04695at 183.700 kb on - strand, within HMPREF1078_RS04695at 183.734 kb on + strand, within HMPREF1078_RS04695at 183.767 kb on + strand, within HMPREF1078_RS04695at 183.773 kb on + strand, within HMPREF1078_RS04695at 183.806 kb on + strand, within HMPREF1078_RS04695at 183.806 kb on + strand, within HMPREF1078_RS04695at 183.807 kb on - strand, within HMPREF1078_RS04695at 183.810 kb on + strand, within HMPREF1078_RS04695at 183.810 kb on + strand, within HMPREF1078_RS04695at 183.810 kb on + strand, within HMPREF1078_RS04695at 183.811 kb on - strand, within HMPREF1078_RS04695at 183.811 kb on - strand, within HMPREF1078_RS04695at 183.811 kb on - strand, within HMPREF1078_RS04695at 183.811 kb on - strand, within HMPREF1078_RS04695at 183.811 kb on - strand, within HMPREF1078_RS04695at 183.834 kb on - strand, within HMPREF1078_RS04695at 183.887 kb on - strand, within HMPREF1078_RS04695at 183.984 kb on - strand, within HMPREF1078_RS04695at 183.984 kb on - strand, within HMPREF1078_RS04695at 184.073 kb on + strand, within HMPREF1078_RS04695at 184.073 kb on + strand, within HMPREF1078_RS04695at 184.074 kb on - strand, within HMPREF1078_RS04695at 184.091 kb on + strand, within HMPREF1078_RS04695at 184.091 kb on + strand, within HMPREF1078_RS04695at 184.095 kb on - strand, within HMPREF1078_RS04695at 184.095 kb on - strand, within HMPREF1078_RS04695at 184.127 kb on + strand, within HMPREF1078_RS04695at 184.137 kb on - strand, within HMPREF1078_RS04695at 184.179 kb on - strandat 184.210 kb on + strandat 184.211 kb on - strandat 184.212 kb on + strandat 184.257 kb on - strandat 184.257 kb on - strandat 184.271 kb on + strandat 184.272 kb on - strandat 184.279 kb on - strandat 184.283 kb on + strandat 184.284 kb on - strandat 184.284 kb on - strandat 184.284 kb on - strandat 184.284 kb on - strandat 184.284 kb on - strandat 184.286 kb on - strandat 184.380 kb on + strandat 184.381 kb on - strandat 184.381 kb on - strandat 184.393 kb on - strandat 184.409 kb on - strandat 184.419 kb on - strandat 184.419 kb on - strandat 184.471 kb on - strand, within HMPREF1078_RS04700at 184.554 kb on - strand, within HMPREF1078_RS04700at 184.564 kb on + strand, within HMPREF1078_RS04700at 184.564 kb on + strand, within HMPREF1078_RS04700at 184.564 kb on + strand, within HMPREF1078_RS04700at 184.564 kb on + strand, within HMPREF1078_RS04700at 184.565 kb on - strand, within HMPREF1078_RS04700at 184.565 kb on - strand, within HMPREF1078_RS04700at 184.569 kb on - strand, within HMPREF1078_RS04700at 184.599 kb on - strand, within HMPREF1078_RS04700at 184.624 kb on + strand, within HMPREF1078_RS04700at 184.624 kb on + strand, within HMPREF1078_RS04700at 184.624 kb on + strand, within HMPREF1078_RS04700at 184.624 kb on + strand, within HMPREF1078_RS04700at 184.624 kb on + strand, within HMPREF1078_RS04700at 184.624 kb on + strand, within HMPREF1078_RS04700at 184.624 kb on + strand, within HMPREF1078_RS04700at 184.625 kb on - strand, within HMPREF1078_RS04700at 184.625 kb on - strand, within HMPREF1078_RS04700at 184.625 kb on - strand, within HMPREF1078_RS04700at 184.630 kb on + strand, within HMPREF1078_RS04700at 184.630 kb on + strand, within HMPREF1078_RS04700at 184.630 kb on + strand, within HMPREF1078_RS04700at 184.630 kb on + strand, within HMPREF1078_RS04700at 184.631 kb on - strand, within HMPREF1078_RS04700at 184.631 kb on - strand, within HMPREF1078_RS04700at 184.631 kb on - strand, within HMPREF1078_RS04700at 184.631 kb on - strand, within HMPREF1078_RS04700at 184.743 kb on + strand, within HMPREF1078_RS04700at 184.744 kb on - strand, within HMPREF1078_RS04700at 184.744 kb on - strand, within HMPREF1078_RS04700at 184.767 kb on + strand, within HMPREF1078_RS04700at 184.767 kb on + strand, within HMPREF1078_RS04700at 184.768 kb on - strand, within HMPREF1078_RS04700at 184.867 kb on - strandat 184.871 kb on + strandat 184.872 kb on - strandat 184.874 kb on + strandat 184.874 kb on + strandat 184.919 kb on - strandat 184.944 kb on - strandat 184.950 kb on + strandat 184.972 kb on - strandat 184.990 kb on + strandat 184.991 kb on - strandat 185.051 kb on - strandat 185.057 kb on + strandat 185.097 kb on + strandat 185.106 kb on - strandat 185.106 kb on - strandat 185.114 kb on + strandat 185.149 kb on + strandat 185.228 kb on + strand, within HMPREF1078_RS04705at 185.228 kb on + strand, within HMPREF1078_RS04705at 185.229 kb on - strand, within HMPREF1078_RS04705at 185.229 kb on - strand, within HMPREF1078_RS04705at 185.345 kb on + strand, within HMPREF1078_RS04705at 185.345 kb on + strand, within HMPREF1078_RS04705at 185.347 kb on + strand, within HMPREF1078_RS04705at 185.348 kb on - strand, within HMPREF1078_RS04705at 185.348 kb on - strand, within HMPREF1078_RS04705at 185.348 kb on - strand, within HMPREF1078_RS04705at 185.348 kb on - strand, within HMPREF1078_RS04705at 185.349 kb on + strand, within HMPREF1078_RS04705at 185.350 kb on - strand, within HMPREF1078_RS04705at 185.373 kb on + strand, within HMPREF1078_RS04705at 185.429 kb on - strand, within HMPREF1078_RS04705at 185.501 kb on + strand, within HMPREF1078_RS04705at 185.501 kb on + strand, within HMPREF1078_RS04705at 185.556 kb on - strand, within HMPREF1078_RS04705at 185.654 kb on + strand, within HMPREF1078_RS04705at 185.749 kb on + strand, within HMPREF1078_RS04705at 185.749 kb on + strand, within HMPREF1078_RS04705at 185.804 kb on - strand, within HMPREF1078_RS04705

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Per-strain Table

Position Strand Gene LocusTag Fraction D-Mannose 10 mg/mL (C)
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183,506 + HMPREF1078_RS04695 0.46 +0.1
183,528 - HMPREF1078_RS04695 0.48 -0.9
183,550 - HMPREF1078_RS04695 0.49 -1.9
183,550 - HMPREF1078_RS04695 0.49 -2.0
183,590 - HMPREF1078_RS04695 0.52 -1.3
183,668 + HMPREF1078_RS04695 0.58 -0.4
183,669 - HMPREF1078_RS04695 0.58 -0.9
183,669 - HMPREF1078_RS04695 0.58 +0.7
183,669 - HMPREF1078_RS04695 0.58 -0.2
183,693 - HMPREF1078_RS04695 0.59 -1.7
183,699 + HMPREF1078_RS04695 0.60 -2.3
183,699 + HMPREF1078_RS04695 0.60 -0.8
183,699 + HMPREF1078_RS04695 0.60 -1.4
183,700 - HMPREF1078_RS04695 0.60 -0.5
183,734 + HMPREF1078_RS04695 0.62 -1.0
183,767 + HMPREF1078_RS04695 0.64 -1.8
183,773 + HMPREF1078_RS04695 0.65 +1.0
183,806 + HMPREF1078_RS04695 0.67 -1.5
183,806 + HMPREF1078_RS04695 0.67 -1.2
183,807 - HMPREF1078_RS04695 0.67 -0.9
183,810 + HMPREF1078_RS04695 0.67 -1.4
183,810 + HMPREF1078_RS04695 0.67 -1.0
183,810 + HMPREF1078_RS04695 0.67 -2.6
183,811 - HMPREF1078_RS04695 0.67 +0.2
183,811 - HMPREF1078_RS04695 0.67 -1.9
183,811 - HMPREF1078_RS04695 0.67 -1.4
183,811 - HMPREF1078_RS04695 0.67 -0.3
183,811 - HMPREF1078_RS04695 0.67 -1.9
183,834 - HMPREF1078_RS04695 0.69 -0.6
183,887 - HMPREF1078_RS04695 0.73 -0.3
183,984 - HMPREF1078_RS04695 0.79 -0.1
183,984 - HMPREF1078_RS04695 0.79 -2.0
184,073 + HMPREF1078_RS04695 0.85 -1.1
184,073 + HMPREF1078_RS04695 0.85 -0.3
184,074 - HMPREF1078_RS04695 0.86 -1.5
184,091 + HMPREF1078_RS04695 0.87 +0.1
184,091 + HMPREF1078_RS04695 0.87 -2.4
184,095 - HMPREF1078_RS04695 0.87 -0.3
184,095 - HMPREF1078_RS04695 0.87 +0.4
184,127 + HMPREF1078_RS04695 0.89 -2.1
184,137 - HMPREF1078_RS04695 0.90 -0.6
184,179 - -1.0
184,210 + -0.4
184,211 - -1.2
184,212 + -1.2
184,257 - -0.7
184,257 - -0.9
184,271 + -3.6
184,272 - -1.4
184,279 - +0.6
184,283 + -1.4
184,284 - -0.9
184,284 - +1.0
184,284 - -0.4
184,284 - -0.6
184,284 - -0.3
184,286 - -0.7
184,380 + -1.3
184,381 - -0.0
184,381 - -1.0
184,393 - +0.2
184,409 - -0.7
184,419 - -1.4
184,419 - -0.4
184,471 - HMPREF1078_RS04700 0.11 -3.0
184,554 - HMPREF1078_RS04700 0.30 -1.7
184,564 + HMPREF1078_RS04700 0.32 -3.3
184,564 + HMPREF1078_RS04700 0.32 -1.9
184,564 + HMPREF1078_RS04700 0.32 -2.7
184,564 + HMPREF1078_RS04700 0.32 -4.0
184,565 - HMPREF1078_RS04700 0.32 -4.6
184,565 - HMPREF1078_RS04700 0.32 -2.5
184,569 - HMPREF1078_RS04700 0.33 -2.1
184,599 - HMPREF1078_RS04700 0.40 -3.5
184,624 + HMPREF1078_RS04700 0.46 -0.9
184,624 + HMPREF1078_RS04700 0.46 -1.6
184,624 + HMPREF1078_RS04700 0.46 -2.3
184,624 + HMPREF1078_RS04700 0.46 -0.7
184,624 + HMPREF1078_RS04700 0.46 -3.6
184,624 + HMPREF1078_RS04700 0.46 -1.3
184,624 + HMPREF1078_RS04700 0.46 -4.1
184,625 - HMPREF1078_RS04700 0.46 -4.2
184,625 - HMPREF1078_RS04700 0.46 -3.6
184,625 - HMPREF1078_RS04700 0.46 -0.5
184,630 + HMPREF1078_RS04700 0.47 -1.0
184,630 + HMPREF1078_RS04700 0.47 -3.5
184,630 + HMPREF1078_RS04700 0.47 -3.1
184,630 + HMPREF1078_RS04700 0.47 -2.0
184,631 - HMPREF1078_RS04700 0.48 -4.3
184,631 - HMPREF1078_RS04700 0.48 -2.1
184,631 - HMPREF1078_RS04700 0.48 -4.4
184,631 - HMPREF1078_RS04700 0.48 -3.8
184,743 + HMPREF1078_RS04700 0.73 -2.2
184,744 - HMPREF1078_RS04700 0.74 -2.7
184,744 - HMPREF1078_RS04700 0.74 -2.6
184,767 + HMPREF1078_RS04700 0.79 -3.1
184,767 + HMPREF1078_RS04700 0.79 -3.8
184,768 - HMPREF1078_RS04700 0.79 -3.9
184,867 - -2.3
184,871 + -3.0
184,872 - -0.1
184,874 + -2.7
184,874 + -5.2
184,919 - +0.5
184,944 - -1.6
184,950 + +0.0
184,972 - +0.0
184,990 + -0.5
184,991 - +0.4
185,051 - +1.3
185,057 + +0.5
185,097 + -0.9
185,106 - -0.7
185,106 - -1.0
185,114 + -0.7
185,149 + +0.3
185,228 + HMPREF1078_RS04705 0.17 +0.2
185,228 + HMPREF1078_RS04705 0.17 -1.0
185,229 - HMPREF1078_RS04705 0.17 -0.8
185,229 - HMPREF1078_RS04705 0.17 -1.2
185,345 + HMPREF1078_RS04705 0.30 +0.9
185,345 + HMPREF1078_RS04705 0.30 +0.4
185,347 + HMPREF1078_RS04705 0.30 -0.7
185,348 - HMPREF1078_RS04705 0.30 -2.1
185,348 - HMPREF1078_RS04705 0.30 +0.5
185,348 - HMPREF1078_RS04705 0.30 -0.4
185,348 - HMPREF1078_RS04705 0.30 +1.1
185,349 + HMPREF1078_RS04705 0.30 +1.2
185,350 - HMPREF1078_RS04705 0.30 -0.5
185,373 + HMPREF1078_RS04705 0.33 +0.3
185,429 - HMPREF1078_RS04705 0.39 -0.3
185,501 + HMPREF1078_RS04705 0.47 +1.0
185,501 + HMPREF1078_RS04705 0.47 -0.4
185,556 - HMPREF1078_RS04705 0.53 -0.0
185,654 + HMPREF1078_RS04705 0.64 -0.3
185,749 + HMPREF1078_RS04705 0.74 -2.6
185,749 + HMPREF1078_RS04705 0.74 -1.0
185,804 - HMPREF1078_RS04705 0.80 -1.3

Or see this region's nucleotide sequence