Strain Fitness in Parabacteroides merdae CL09T00C40 around HMPREF1078_RS01065

Experiment: Pectin from citrus peel; autoclaved 2.5 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_RS01060 and HMPREF1078_RS01065 overlap by 1 nucleotidesHMPREF1078_RS01065 and HMPREF1078_RS01070 are separated by 159 nucleotides HMPREF1078_RS01060: HMPREF1078_RS01060 - efflux RND transporter permease subunit, at 264,116 to 267,244 _RS01060 HMPREF1078_RS01065: HMPREF1078_RS01065 - TolC family protein, at 267,244 to 268,611 _RS01065 HMPREF1078_RS01070: HMPREF1078_RS01070 - DUF4925 domain-containing protein, at 268,771 to 269,802 _RS01070 Position (kb) 267 268 269Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 266.247 kb on - strand, within HMPREF1078_RS01060at 266.366 kb on - strand, within HMPREF1078_RS01060at 266.412 kb on + strand, within HMPREF1078_RS01060at 266.699 kb on + strand, within HMPREF1078_RS01060at 266.765 kb on + strand, within HMPREF1078_RS01060at 266.765 kb on - strand, within HMPREF1078_RS01060at 266.766 kb on - strand, within HMPREF1078_RS01060at 266.956 kb on - strandat 266.968 kb on - strandat 267.207 kb on + strandat 267.230 kb on - strandat 267.230 kb on - strandat 267.238 kb on - strandat 267.254 kb on + strandat 267.254 kb on + strandat 267.255 kb on - strandat 267.273 kb on + strandat 267.274 kb on - strandat 267.346 kb on + strandat 267.347 kb on - strandat 267.347 kb on - strandat 267.347 kb on - strandat 267.349 kb on - strandat 267.394 kb on + strand, within HMPREF1078_RS01065at 267.395 kb on - strand, within HMPREF1078_RS01065at 267.410 kb on - strand, within HMPREF1078_RS01065at 267.457 kb on + strand, within HMPREF1078_RS01065at 267.515 kb on - strand, within HMPREF1078_RS01065at 267.551 kb on - strand, within HMPREF1078_RS01065at 267.598 kb on + strand, within HMPREF1078_RS01065at 267.599 kb on - strand, within HMPREF1078_RS01065at 267.634 kb on - strand, within HMPREF1078_RS01065at 267.745 kb on + strand, within HMPREF1078_RS01065at 267.794 kb on - strand, within HMPREF1078_RS01065at 267.794 kb on - strand, within HMPREF1078_RS01065at 267.915 kb on + strand, within HMPREF1078_RS01065at 267.994 kb on - strand, within HMPREF1078_RS01065at 268.160 kb on - strand, within HMPREF1078_RS01065at 268.165 kb on + strand, within HMPREF1078_RS01065at 268.165 kb on + strand, within HMPREF1078_RS01065at 268.165 kb on + strand, within HMPREF1078_RS01065at 268.170 kb on - strand, within HMPREF1078_RS01065at 268.446 kb on + strand, within HMPREF1078_RS01065at 268.552 kb on + strandat 268.552 kb on + strandat 268.552 kb on + strandat 268.553 kb on - strandat 268.561 kb on + strandat 268.562 kb on - strandat 268.571 kb on - strandat 268.612 kb on - strandat 268.617 kb on + strandat 268.617 kb on + strandat 268.618 kb on - strandat 268.710 kb on + strandat 268.710 kb on + strandat 268.710 kb on + strandat 268.711 kb on - strandat 268.711 kb on - strandat 268.711 kb on - strandat 268.711 kb on - strandat 268.720 kb on + strandat 268.721 kb on - strandat 268.748 kb on - strandat 268.770 kb on + strandat 268.771 kb on - strandat 268.797 kb on + strandat 268.798 kb on - strandat 268.833 kb on + strandat 268.833 kb on + strandat 268.833 kb on + strandat 268.851 kb on + strandat 268.851 kb on + strandat 268.852 kb on - strandat 268.852 kb on - strandat 268.852 kb on - strandat 268.875 kb on + strand, within HMPREF1078_RS01070at 268.876 kb on - strand, within HMPREF1078_RS01070at 268.890 kb on + strand, within HMPREF1078_RS01070at 268.891 kb on - strand, within HMPREF1078_RS01070at 268.946 kb on + strand, within HMPREF1078_RS01070at 268.946 kb on + strand, within HMPREF1078_RS01070at 268.952 kb on + strand, within HMPREF1078_RS01070at 268.953 kb on - strand, within HMPREF1078_RS01070at 268.953 kb on - strand, within HMPREF1078_RS01070at 268.980 kb on + strand, within HMPREF1078_RS01070at 268.981 kb on - strand, within HMPREF1078_RS01070at 268.983 kb on + strand, within HMPREF1078_RS01070at 268.984 kb on - strand, within HMPREF1078_RS01070at 268.984 kb on - strand, within HMPREF1078_RS01070at 269.056 kb on + strand, within HMPREF1078_RS01070at 269.056 kb on + strand, within HMPREF1078_RS01070at 269.172 kb on + strand, within HMPREF1078_RS01070at 269.172 kb on + strand, within HMPREF1078_RS01070at 269.173 kb on - strand, within HMPREF1078_RS01070at 269.235 kb on + strand, within HMPREF1078_RS01070at 269.235 kb on + strand, within HMPREF1078_RS01070at 269.236 kb on - strand, within HMPREF1078_RS01070at 269.236 kb on - strand, within HMPREF1078_RS01070at 269.277 kb on - strand, within HMPREF1078_RS01070at 269.289 kb on + strand, within HMPREF1078_RS01070at 269.289 kb on + strand, within HMPREF1078_RS01070at 269.290 kb on - strand, within HMPREF1078_RS01070at 269.295 kb on + strand, within HMPREF1078_RS01070at 269.296 kb on - strand, within HMPREF1078_RS01070at 269.298 kb on + strand, within HMPREF1078_RS01070at 269.298 kb on + strand, within HMPREF1078_RS01070at 269.301 kb on - strand, within HMPREF1078_RS01070at 269.301 kb on - strand, within HMPREF1078_RS01070at 269.330 kb on + strand, within HMPREF1078_RS01070at 269.349 kb on + strand, within HMPREF1078_RS01070at 269.349 kb on + strand, within HMPREF1078_RS01070at 269.350 kb on - strand, within HMPREF1078_RS01070at 269.383 kb on - strand, within HMPREF1078_RS01070at 269.383 kb on - strand, within HMPREF1078_RS01070at 269.449 kb on + strand, within HMPREF1078_RS01070at 269.449 kb on + strand, within HMPREF1078_RS01070at 269.450 kb on - strand, within HMPREF1078_RS01070at 269.458 kb on + strand, within HMPREF1078_RS01070at 269.458 kb on + strand, within HMPREF1078_RS01070at 269.459 kb on - strand, within HMPREF1078_RS01070at 269.459 kb on - strand, within HMPREF1078_RS01070at 269.459 kb on - strand, within HMPREF1078_RS01070at 269.459 kb on - strand, within HMPREF1078_RS01070at 269.461 kb on - strand, within HMPREF1078_RS01070at 269.473 kb on - strand, within HMPREF1078_RS01070at 269.480 kb on + strand, within HMPREF1078_RS01070at 269.480 kb on + strand, within HMPREF1078_RS01070at 269.481 kb on - strand, within HMPREF1078_RS01070at 269.497 kb on - strand, within HMPREF1078_RS01070at 269.497 kb on - strand, within HMPREF1078_RS01070at 269.498 kb on + strand, within HMPREF1078_RS01070at 269.499 kb on - strand, within HMPREF1078_RS01070at 269.502 kb on + strand, within HMPREF1078_RS01070at 269.502 kb on + strand, within HMPREF1078_RS01070at 269.502 kb on + strand, within HMPREF1078_RS01070at 269.502 kb on + strand, within HMPREF1078_RS01070at 269.503 kb on - strand, within HMPREF1078_RS01070at 269.536 kb on - strand, within HMPREF1078_RS01070at 269.536 kb on - strand, within HMPREF1078_RS01070at 269.536 kb on - strand, within HMPREF1078_RS01070at 269.537 kb on + strand, within HMPREF1078_RS01070at 269.538 kb on - strand, within HMPREF1078_RS01070at 269.565 kb on - strand, within HMPREF1078_RS01070at 269.586 kb on + strand, within HMPREF1078_RS01070

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Per-strain Table

Position Strand Gene LocusTag Fraction Pectin from citrus peel; autoclaved 2.5 mg/mL (C)
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266,247 - HMPREF1078_RS01060 0.68 -0.8
266,366 - HMPREF1078_RS01060 0.72 -0.2
266,412 + HMPREF1078_RS01060 0.73 +1.1
266,699 + HMPREF1078_RS01060 0.83 +0.6
266,765 + HMPREF1078_RS01060 0.85 +0.1
266,765 - HMPREF1078_RS01060 0.85 -0.8
266,766 - HMPREF1078_RS01060 0.85 -0.1
266,956 - +0.4
266,968 - +1.6
267,207 + -1.7
267,230 - +0.1
267,230 - +0.3
267,238 - +0.6
267,254 + -1.8
267,254 + -0.6
267,255 - +1.4
267,273 + +0.8
267,274 - -0.3
267,346 + -2.9
267,347 - -1.0
267,347 - -1.6
267,347 - -1.9
267,349 - -0.2
267,394 + HMPREF1078_RS01065 0.11 -2.7
267,395 - HMPREF1078_RS01065 0.11 -0.0
267,410 - HMPREF1078_RS01065 0.12 -2.4
267,457 + HMPREF1078_RS01065 0.16 -1.8
267,515 - HMPREF1078_RS01065 0.20 -0.7
267,551 - HMPREF1078_RS01065 0.22 +0.5
267,598 + HMPREF1078_RS01065 0.26 -1.6
267,599 - HMPREF1078_RS01065 0.26 -0.7
267,634 - HMPREF1078_RS01065 0.29 +0.8
267,745 + HMPREF1078_RS01065 0.37 +0.7
267,794 - HMPREF1078_RS01065 0.40 +0.1
267,794 - HMPREF1078_RS01065 0.40 +0.4
267,915 + HMPREF1078_RS01065 0.49 -1.0
267,994 - HMPREF1078_RS01065 0.55 -1.3
268,160 - HMPREF1078_RS01065 0.67 -1.7
268,165 + HMPREF1078_RS01065 0.67 -2.5
268,165 + HMPREF1078_RS01065 0.67 +0.8
268,165 + HMPREF1078_RS01065 0.67 +0.2
268,170 - HMPREF1078_RS01065 0.68 -0.9
268,446 + HMPREF1078_RS01065 0.88 -1.0
268,552 + +0.4
268,552 + +0.5
268,552 + -2.2
268,553 - +0.4
268,561 + -2.3
268,562 - +0.4
268,571 - +0.1
268,612 - -0.1
268,617 + +1.0
268,617 + +0.4
268,618 - -2.2
268,710 + -1.4
268,710 + -2.6
268,710 + +1.5
268,711 - -2.3
268,711 - -1.1
268,711 - +2.5
268,711 - +0.5
268,720 + -2.0
268,721 - +0.6
268,748 - +0.5
268,770 + -1.0
268,771 - +0.6
268,797 + -1.1
268,798 - -0.6
268,833 + -3.3
268,833 + +2.3
268,833 + -1.1
268,851 + -0.5
268,851 + -1.3
268,852 - -1.9
268,852 - -1.3
268,852 - -3.6
268,875 + HMPREF1078_RS01070 0.10 -0.3
268,876 - HMPREF1078_RS01070 0.10 -0.4
268,890 + HMPREF1078_RS01070 0.12 +1.2
268,891 - HMPREF1078_RS01070 0.12 -2.1
268,946 + HMPREF1078_RS01070 0.17 -0.5
268,946 + HMPREF1078_RS01070 0.17 -2.0
268,952 + HMPREF1078_RS01070 0.18 +0.4
268,953 - HMPREF1078_RS01070 0.18 -1.2
268,953 - HMPREF1078_RS01070 0.18 -0.1
268,980 + HMPREF1078_RS01070 0.20 -2.2
268,981 - HMPREF1078_RS01070 0.20 -0.8
268,983 + HMPREF1078_RS01070 0.21 -0.3
268,984 - HMPREF1078_RS01070 0.21 +1.0
268,984 - HMPREF1078_RS01070 0.21 +0.1
269,056 + HMPREF1078_RS01070 0.28 -0.0
269,056 + HMPREF1078_RS01070 0.28 +0.2
269,172 + HMPREF1078_RS01070 0.39 -0.3
269,172 + HMPREF1078_RS01070 0.39 +0.5
269,173 - HMPREF1078_RS01070 0.39 -0.4
269,235 + HMPREF1078_RS01070 0.45 -1.1
269,235 + HMPREF1078_RS01070 0.45 -2.4
269,236 - HMPREF1078_RS01070 0.45 -1.4
269,236 - HMPREF1078_RS01070 0.45 +1.0
269,277 - HMPREF1078_RS01070 0.49 -0.2
269,289 + HMPREF1078_RS01070 0.50 -1.6
269,289 + HMPREF1078_RS01070 0.50 -2.3
269,290 - HMPREF1078_RS01070 0.50 +0.4
269,295 + HMPREF1078_RS01070 0.51 +0.5
269,296 - HMPREF1078_RS01070 0.51 -1.7
269,298 + HMPREF1078_RS01070 0.51 +0.3
269,298 + HMPREF1078_RS01070 0.51 +1.1
269,301 - HMPREF1078_RS01070 0.51 +0.5
269,301 - HMPREF1078_RS01070 0.51 +2.5
269,330 + HMPREF1078_RS01070 0.54 -1.1
269,349 + HMPREF1078_RS01070 0.56 +0.5
269,349 + HMPREF1078_RS01070 0.56 -2.0
269,350 - HMPREF1078_RS01070 0.56 +1.6
269,383 - HMPREF1078_RS01070 0.59 -0.3
269,383 - HMPREF1078_RS01070 0.59 -0.3
269,449 + HMPREF1078_RS01070 0.66 +1.0
269,449 + HMPREF1078_RS01070 0.66 -0.0
269,450 - HMPREF1078_RS01070 0.66 -0.3
269,458 + HMPREF1078_RS01070 0.67 +1.5
269,458 + HMPREF1078_RS01070 0.67 -0.4
269,459 - HMPREF1078_RS01070 0.67 -1.1
269,459 - HMPREF1078_RS01070 0.67 +0.4
269,459 - HMPREF1078_RS01070 0.67 -0.1
269,459 - HMPREF1078_RS01070 0.67 -0.1
269,461 - HMPREF1078_RS01070 0.67 +0.2
269,473 - HMPREF1078_RS01070 0.68 +1.3
269,480 + HMPREF1078_RS01070 0.69 -2.8
269,480 + HMPREF1078_RS01070 0.69 -1.1
269,481 - HMPREF1078_RS01070 0.69 -0.4
269,497 - HMPREF1078_RS01070 0.70 +0.0
269,497 - HMPREF1078_RS01070 0.70 -0.5
269,498 + HMPREF1078_RS01070 0.70 -0.5
269,499 - HMPREF1078_RS01070 0.71 -2.1
269,502 + HMPREF1078_RS01070 0.71 -0.1
269,502 + HMPREF1078_RS01070 0.71 -1.8
269,502 + HMPREF1078_RS01070 0.71 +1.8
269,502 + HMPREF1078_RS01070 0.71 +0.2
269,503 - HMPREF1078_RS01070 0.71 +0.9
269,536 - HMPREF1078_RS01070 0.74 -0.6
269,536 - HMPREF1078_RS01070 0.74 +0.5
269,536 - HMPREF1078_RS01070 0.74 -0.1
269,537 + HMPREF1078_RS01070 0.74 -1.0
269,538 - HMPREF1078_RS01070 0.74 -0.5
269,565 - HMPREF1078_RS01070 0.77 -0.8
269,586 + HMPREF1078_RS01070 0.79 -2.5

Or see this region's nucleotide sequence