Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS03400

Experiment: Sucrose 20 mM (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 ntHMPREF1058_RS03405 and HMPREF1058_RS03400 overlap by 4 nucleotidesHMPREF1058_RS03400 and HMPREF1058_RS03395 are separated by 7 nucleotidesHMPREF1058_RS03395 and HMPREF1058_RS03390 are separated by 13 nucleotidesHMPREF1058_RS03390 and HMPREF1058_RS03385 are separated by 20 nucleotides HMPREF1058_RS03405: HMPREF1058_RS03405 - SDR family oxidoreductase, at 287,974 to 288,696 _RS03405 HMPREF1058_RS03400: HMPREF1058_RS03400 - long-chain fatty acid--CoA ligase, at 288,693 to 289,907 _RS03400 HMPREF1058_RS03395: HMPREF1058_RS03395 - acyl carrier protein, at 289,915 to 290,139 _RS03395 HMPREF1058_RS03390: HMPREF1058_RS03390 - GNAT family N-acetyltransferase, at 290,153 to 290,626 _RS03390 HMPREF1058_RS03385: HMPREF1058_RS03385 - ATP-grasp domain-containing protein, at 290,647 to 291,852 _RS03385 Position (kb) 288 289 290Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 287.816 kb on + strandat 287.928 kb on - strandat 287.930 kb on - strandat 287.931 kb on + strandat 287.946 kb on + strandat 288.012 kb on + strandat 288.018 kb on + strandat 288.018 kb on + strandat 288.174 kb on + strand, within HMPREF1058_RS03405at 288.251 kb on + strand, within HMPREF1058_RS03405at 288.251 kb on + strand, within HMPREF1058_RS03405at 288.251 kb on + strand, within HMPREF1058_RS03405at 288.252 kb on - strand, within HMPREF1058_RS03405at 288.252 kb on - strand, within HMPREF1058_RS03405at 288.252 kb on - strand, within HMPREF1058_RS03405at 288.277 kb on - strand, within HMPREF1058_RS03405at 288.277 kb on - strand, within HMPREF1058_RS03405at 288.298 kb on - strand, within HMPREF1058_RS03405at 288.306 kb on + strand, within HMPREF1058_RS03405at 288.306 kb on + strand, within HMPREF1058_RS03405at 288.333 kb on + strand, within HMPREF1058_RS03405at 288.334 kb on - strand, within HMPREF1058_RS03405at 288.336 kb on + strand, within HMPREF1058_RS03405at 288.369 kb on + strand, within HMPREF1058_RS03405at 288.594 kb on + strand, within HMPREF1058_RS03405at 288.617 kb on - strand, within HMPREF1058_RS03405at 288.650 kb on - strandat 288.884 kb on - strand, within HMPREF1058_RS03400at 288.917 kb on + strand, within HMPREF1058_RS03400at 288.951 kb on - strand, within HMPREF1058_RS03400at 288.966 kb on + strand, within HMPREF1058_RS03400at 288.967 kb on - strand, within HMPREF1058_RS03400at 289.046 kb on - strand, within HMPREF1058_RS03400at 289.100 kb on + strand, within HMPREF1058_RS03400at 289.197 kb on - strand, within HMPREF1058_RS03400at 289.204 kb on + strand, within HMPREF1058_RS03400at 289.209 kb on - strand, within HMPREF1058_RS03400at 289.233 kb on + strand, within HMPREF1058_RS03400at 289.242 kb on + strand, within HMPREF1058_RS03400at 289.243 kb on - strand, within HMPREF1058_RS03400at 289.324 kb on - strand, within HMPREF1058_RS03400at 289.326 kb on + strand, within HMPREF1058_RS03400at 289.327 kb on - strand, within HMPREF1058_RS03400at 289.372 kb on + strand, within HMPREF1058_RS03400at 289.373 kb on - strand, within HMPREF1058_RS03400at 289.495 kb on + strand, within HMPREF1058_RS03400at 289.495 kb on + strand, within HMPREF1058_RS03400at 289.517 kb on - strand, within HMPREF1058_RS03400at 289.559 kb on + strand, within HMPREF1058_RS03400at 289.599 kb on - strand, within HMPREF1058_RS03400at 289.761 kb on - strand, within HMPREF1058_RS03400at 289.822 kb on - strandat 289.831 kb on + strandat 289.831 kb on + strandat 289.832 kb on - strandat 289.832 kb on - strandat 289.841 kb on + strandat 289.841 kb on + strandat 289.842 kb on - strandat 289.845 kb on + strandat 289.855 kb on - strandat 289.868 kb on - strandat 289.872 kb on - strandat 289.872 kb on - strandat 289.872 kb on - strandat 289.872 kb on - strandat 289.872 kb on - strandat 289.902 kb on - strandat 290.073 kb on + strand, within HMPREF1058_RS03395at 290.113 kb on - strand, within HMPREF1058_RS03395at 290.126 kb on - strandat 290.219 kb on + strand, within HMPREF1058_RS03390at 290.252 kb on + strand, within HMPREF1058_RS03390at 290.252 kb on + strand, within HMPREF1058_RS03390at 290.253 kb on - strand, within HMPREF1058_RS03390at 290.311 kb on - strand, within HMPREF1058_RS03390at 290.335 kb on + strand, within HMPREF1058_RS03390at 290.335 kb on + strand, within HMPREF1058_RS03390at 290.354 kb on - strand, within HMPREF1058_RS03390at 290.354 kb on - strand, within HMPREF1058_RS03390at 290.354 kb on - strand, within HMPREF1058_RS03390at 290.440 kb on + strand, within HMPREF1058_RS03390at 290.502 kb on + strand, within HMPREF1058_RS03390at 290.503 kb on - strand, within HMPREF1058_RS03390at 290.508 kb on - strand, within HMPREF1058_RS03390at 290.525 kb on - strand, within HMPREF1058_RS03390at 290.611 kb on + strandat 290.612 kb on - strandat 290.612 kb on - strandat 290.612 kb on - strandat 290.613 kb on + strandat 290.615 kb on + strandat 290.618 kb on + strandat 290.746 kb on - strandat 290.803 kb on + strand, within HMPREF1058_RS03385at 290.811 kb on - strand, within HMPREF1058_RS03385at 290.827 kb on - strand, within HMPREF1058_RS03385at 290.835 kb on - strand, within HMPREF1058_RS03385at 290.897 kb on + strand, within HMPREF1058_RS03385at 290.897 kb on + strand, within HMPREF1058_RS03385at 290.898 kb on - strand, within HMPREF1058_RS03385at 290.898 kb on - strand, within HMPREF1058_RS03385

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Per-strain Table

Position Strand Gene LocusTag Fraction Sucrose 20 mM (C)
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287,816 + -0.6
287,928 - -1.0
287,930 - +0.5
287,931 + +1.6
287,946 + +0.8
288,012 + -1.6
288,018 + -0.1
288,018 + +0.4
288,174 + HMPREF1058_RS03405 0.28 -1.6
288,251 + HMPREF1058_RS03405 0.38 -0.8
288,251 + HMPREF1058_RS03405 0.38 +0.8
288,251 + HMPREF1058_RS03405 0.38 +0.8
288,252 - HMPREF1058_RS03405 0.38 -0.5
288,252 - HMPREF1058_RS03405 0.38 -0.4
288,252 - HMPREF1058_RS03405 0.38 -0.1
288,277 - HMPREF1058_RS03405 0.42 -0.3
288,277 - HMPREF1058_RS03405 0.42 -0.3
288,298 - HMPREF1058_RS03405 0.45 +2.8
288,306 + HMPREF1058_RS03405 0.46 -0.9
288,306 + HMPREF1058_RS03405 0.46 -0.8
288,333 + HMPREF1058_RS03405 0.50 -0.0
288,334 - HMPREF1058_RS03405 0.50 -0.8
288,336 + HMPREF1058_RS03405 0.50 -1.0
288,369 + HMPREF1058_RS03405 0.55 -0.2
288,594 + HMPREF1058_RS03405 0.86 +1.2
288,617 - HMPREF1058_RS03405 0.89 -1.1
288,650 - +1.1
288,884 - HMPREF1058_RS03400 0.16 -0.2
288,917 + HMPREF1058_RS03400 0.18 +0.3
288,951 - HMPREF1058_RS03400 0.21 +0.8
288,966 + HMPREF1058_RS03400 0.22 +0.5
288,967 - HMPREF1058_RS03400 0.23 +0.1
289,046 - HMPREF1058_RS03400 0.29 -1.0
289,100 + HMPREF1058_RS03400 0.33 +1.9
289,197 - HMPREF1058_RS03400 0.41 -1.4
289,204 + HMPREF1058_RS03400 0.42 +0.0
289,209 - HMPREF1058_RS03400 0.42 -0.0
289,233 + HMPREF1058_RS03400 0.44 +0.3
289,242 + HMPREF1058_RS03400 0.45 -0.2
289,243 - HMPREF1058_RS03400 0.45 +1.6
289,324 - HMPREF1058_RS03400 0.52 +0.8
289,326 + HMPREF1058_RS03400 0.52 +1.2
289,327 - HMPREF1058_RS03400 0.52 +0.5
289,372 + HMPREF1058_RS03400 0.56 +0.2
289,373 - HMPREF1058_RS03400 0.56 -1.1
289,495 + HMPREF1058_RS03400 0.66 -1.2
289,495 + HMPREF1058_RS03400 0.66 +0.1
289,517 - HMPREF1058_RS03400 0.68 +0.8
289,559 + HMPREF1058_RS03400 0.71 +0.1
289,599 - HMPREF1058_RS03400 0.75 -2.0
289,761 - HMPREF1058_RS03400 0.88 +1.6
289,822 - -3.0
289,831 + +0.2
289,831 + +1.2
289,832 - -0.1
289,832 - -2.9
289,841 + +1.3
289,841 + +0.6
289,842 - -0.0
289,845 + +0.1
289,855 - -1.6
289,868 - +0.1
289,872 - +1.5
289,872 - -0.1
289,872 - +1.8
289,872 - +0.6
289,872 - +0.6
289,902 - -2.9
290,073 + HMPREF1058_RS03395 0.70 +0.6
290,113 - HMPREF1058_RS03395 0.88 -1.4
290,126 - +0.3
290,219 + HMPREF1058_RS03390 0.14 +0.7
290,252 + HMPREF1058_RS03390 0.21 -0.4
290,252 + HMPREF1058_RS03390 0.21 +1.8
290,253 - HMPREF1058_RS03390 0.21 -0.2
290,311 - HMPREF1058_RS03390 0.33 +0.8
290,335 + HMPREF1058_RS03390 0.38 -1.1
290,335 + HMPREF1058_RS03390 0.38 -1.4
290,354 - HMPREF1058_RS03390 0.42 +0.7
290,354 - HMPREF1058_RS03390 0.42 +0.8
290,354 - HMPREF1058_RS03390 0.42 -0.2
290,440 + HMPREF1058_RS03390 0.61 +1.4
290,502 + HMPREF1058_RS03390 0.74 -1.1
290,503 - HMPREF1058_RS03390 0.74 +0.1
290,508 - HMPREF1058_RS03390 0.75 +0.8
290,525 - HMPREF1058_RS03390 0.78 +1.2
290,611 + +0.7
290,612 - -0.1
290,612 - +0.5
290,612 - -0.1
290,613 + +1.2
290,615 + +3.6
290,618 + +2.6
290,746 - +2.1
290,803 + HMPREF1058_RS03385 0.13 +0.9
290,811 - HMPREF1058_RS03385 0.14 +0.0
290,827 - HMPREF1058_RS03385 0.15 +2.0
290,835 - HMPREF1058_RS03385 0.16 +0.7
290,897 + HMPREF1058_RS03385 0.21 -0.3
290,897 + HMPREF1058_RS03385 0.21 +0.9
290,898 - HMPREF1058_RS03385 0.21 -1.1
290,898 - HMPREF1058_RS03385 0.21 +0.6

Or see this region's nucleotide sequence