Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS03400

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse16; day7

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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 2at 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 diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse16; day7
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287,816 + +1.0
287,928 - +1.4
287,930 - -0.7
287,931 + -2.2
287,946 + -0.4
288,012 + +0.2
288,018 + -1.0
288,018 + -0.4
288,174 + HMPREF1058_RS03405 0.28 -1.4
288,251 + HMPREF1058_RS03405 0.38 +0.8
288,251 + HMPREF1058_RS03405 0.38 +0.4
288,251 + HMPREF1058_RS03405 0.38 -0.0
288,252 - HMPREF1058_RS03405 0.38 -1.5
288,252 - HMPREF1058_RS03405 0.38 +1.4
288,252 - HMPREF1058_RS03405 0.38 -1.8
288,277 - HMPREF1058_RS03405 0.42 -0.2
288,277 - HMPREF1058_RS03405 0.42 +1.4
288,298 - HMPREF1058_RS03405 0.45 +0.4
288,306 + HMPREF1058_RS03405 0.46 -0.4
288,306 + HMPREF1058_RS03405 0.46 +0.0
288,333 + HMPREF1058_RS03405 0.50 -0.1
288,334 - HMPREF1058_RS03405 0.50 -0.4
288,336 + HMPREF1058_RS03405 0.50 +0.6
288,369 + HMPREF1058_RS03405 0.55 -1.0
288,594 + HMPREF1058_RS03405 0.86 -0.1
288,617 - HMPREF1058_RS03405 0.89 -0.2
288,650 - -1.3
288,884 - HMPREF1058_RS03400 0.16 -1.6
288,917 + HMPREF1058_RS03400 0.18 -0.1
288,951 - HMPREF1058_RS03400 0.21 +0.8
288,966 + HMPREF1058_RS03400 0.22 +2.2
288,967 - HMPREF1058_RS03400 0.23 -0.8
289,046 - HMPREF1058_RS03400 0.29 -1.8
289,100 + HMPREF1058_RS03400 0.33 -0.8
289,197 - HMPREF1058_RS03400 0.41 -1.1
289,204 + HMPREF1058_RS03400 0.42 +0.1
289,209 - HMPREF1058_RS03400 0.42 +1.8
289,233 + HMPREF1058_RS03400 0.44 +0.4
289,242 + HMPREF1058_RS03400 0.45 +0.4
289,243 - HMPREF1058_RS03400 0.45 -1.6
289,324 - HMPREF1058_RS03400 0.52 -0.2
289,326 + HMPREF1058_RS03400 0.52 -0.3
289,327 - HMPREF1058_RS03400 0.52 +0.4
289,372 + HMPREF1058_RS03400 0.56 -0.4
289,373 - HMPREF1058_RS03400 0.56 -0.5
289,495 + HMPREF1058_RS03400 0.66 -0.6
289,495 + HMPREF1058_RS03400 0.66 +0.5
289,517 - HMPREF1058_RS03400 0.68 -0.6
289,559 + HMPREF1058_RS03400 0.71 -1.5
289,599 - HMPREF1058_RS03400 0.75 +1.4
289,761 - HMPREF1058_RS03400 0.88 -1.2
289,822 - -2.8
289,831 + -2.2
289,831 + -1.1
289,832 - +2.5
289,832 - -1.1
289,841 + +1.8
289,841 + +1.0
289,842 - -0.4
289,845 + -1.4
289,855 - -1.0
289,868 - +1.0
289,872 - +0.4
289,872 - -2.3
289,872 - -0.7
289,872 - -0.4
289,872 - +0.0
289,902 - -0.4
290,073 + HMPREF1058_RS03395 0.70 +1.4
290,113 - HMPREF1058_RS03395 0.88 -0.6
290,126 - -2.0
290,219 + HMPREF1058_RS03390 0.14 +0.3
290,252 + HMPREF1058_RS03390 0.21 -0.4
290,252 + HMPREF1058_RS03390 0.21 -0.8
290,253 - HMPREF1058_RS03390 0.21 +0.5
290,311 - HMPREF1058_RS03390 0.33 +0.1
290,335 + HMPREF1058_RS03390 0.38 -1.7
290,335 + HMPREF1058_RS03390 0.38 +1.6
290,354 - HMPREF1058_RS03390 0.42 -0.6
290,354 - HMPREF1058_RS03390 0.42 -0.8
290,354 - HMPREF1058_RS03390 0.42 +0.6
290,440 + HMPREF1058_RS03390 0.61 -1.3
290,502 + HMPREF1058_RS03390 0.74 +0.1
290,503 - HMPREF1058_RS03390 0.74 -0.6
290,508 - HMPREF1058_RS03390 0.75 -1.8
290,525 - HMPREF1058_RS03390 0.78 -1.8
290,611 + +1.4
290,612 - -0.4
290,612 - -0.2
290,612 - -1.9
290,613 + -0.1
290,615 + +0.4
290,618 + -0.2
290,746 - -0.2
290,803 + HMPREF1058_RS03385 0.13 -1.3
290,811 - HMPREF1058_RS03385 0.14 +0.0
290,827 - HMPREF1058_RS03385 0.15 +0.4
290,835 - HMPREF1058_RS03385 0.16 -0.7
290,897 + HMPREF1058_RS03385 0.21 +0.0
290,897 + HMPREF1058_RS03385 0.21 -1.1
290,898 - HMPREF1058_RS03385 0.21 +0.8
290,898 - HMPREF1058_RS03385 0.21 +0.4

Or see this region's nucleotide sequence