Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS02105

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse13; day1

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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_RS02110 and HMPREF1058_RS02105 are separated by 451 nucleotidesHMPREF1058_RS02105 and HMPREF1058_RS02100 are separated by 53 nucleotides HMPREF1058_RS02110: HMPREF1058_RS02110 - NADP-dependent malic enzyme, at 283,814 to 286,099 _RS02110 HMPREF1058_RS02105: HMPREF1058_RS02105 - efflux RND transporter periplasmic adaptor subunit, at 286,551 to 287,762 _RS02105 HMPREF1058_RS02100: HMPREF1058_RS02100 - efflux RND transporter permease subunit, at 287,816 to 291,034 _RS02100 Position (kb) 286 287 288Strain fitness (log2 ratio) -4 -3 -2 -1 0 1at 285.813 kb on - strand, within HMPREF1058_RS02110at 285.855 kb on - strand, within HMPREF1058_RS02110at 285.855 kb on - strand, within HMPREF1058_RS02110at 285.893 kb on - strandat 285.902 kb on + strandat 285.919 kb on + strandat 285.920 kb on - strandat 285.922 kb on - strandat 286.112 kb on + strandat 286.114 kb on + strandat 286.122 kb on + strandat 286.309 kb on + strandat 286.359 kb on + strandat 286.395 kb on - strandat 286.502 kb on - strandat 286.527 kb on - strandat 286.547 kb on - strandat 286.571 kb on + strandat 286.726 kb on - strand, within HMPREF1058_RS02105at 286.894 kb on + strand, within HMPREF1058_RS02105at 286.895 kb on - strand, within HMPREF1058_RS02105at 287.130 kb on - strand, within HMPREF1058_RS02105at 287.135 kb on + strand, within HMPREF1058_RS02105at 287.196 kb on + strand, within HMPREF1058_RS02105at 287.202 kb on + strand, within HMPREF1058_RS02105at 287.202 kb on + strand, within HMPREF1058_RS02105at 287.203 kb on - strand, within HMPREF1058_RS02105at 287.211 kb on - strand, within HMPREF1058_RS02105at 287.309 kb on + strand, within HMPREF1058_RS02105at 287.309 kb on + strand, within HMPREF1058_RS02105at 287.316 kb on + strand, within HMPREF1058_RS02105at 287.317 kb on - strand, within HMPREF1058_RS02105at 287.318 kb on + strand, within HMPREF1058_RS02105at 287.330 kb on + strand, within HMPREF1058_RS02105at 287.331 kb on - strand, within HMPREF1058_RS02105at 287.344 kb on + strand, within HMPREF1058_RS02105at 287.344 kb on + strand, within HMPREF1058_RS02105at 287.354 kb on + strand, within HMPREF1058_RS02105at 287.381 kb on + strand, within HMPREF1058_RS02105at 287.413 kb on + strand, within HMPREF1058_RS02105at 287.436 kb on - strand, within HMPREF1058_RS02105at 287.436 kb on - strand, within HMPREF1058_RS02105at 287.441 kb on - strand, within HMPREF1058_RS02105at 287.454 kb on - strand, within HMPREF1058_RS02105at 287.520 kb on + strand, within HMPREF1058_RS02105at 287.520 kb on + strand, within HMPREF1058_RS02105at 287.540 kb on + strand, within HMPREF1058_RS02105at 287.541 kb on - strand, within HMPREF1058_RS02105at 287.593 kb on - strand, within HMPREF1058_RS02105at 287.593 kb on - strand, within HMPREF1058_RS02105at 287.595 kb on - strand, within HMPREF1058_RS02105at 287.595 kb on - strand, within HMPREF1058_RS02105at 287.595 kb on - strand, within HMPREF1058_RS02105at 287.600 kb on + strand, within HMPREF1058_RS02105at 287.644 kb on + strandat 287.756 kb on + strandat 287.767 kb on + strandat 287.783 kb on + strandat 287.798 kb on - strandat 287.802 kb on - strandat 287.806 kb on + strandat 287.809 kb on - strandat 287.810 kb on + strandat 287.810 kb on + strandat 287.823 kb on + strandat 287.874 kb on + strandat 287.902 kb on + strandat 287.902 kb on + strandat 288.047 kb on + strandat 288.048 kb on - strandat 288.048 kb on - strandat 288.048 kb on - strandat 288.048 kb on - strandat 288.048 kb on - strandat 288.287 kb on + strand, within HMPREF1058_RS02100at 288.287 kb on + strand, within HMPREF1058_RS02100at 288.288 kb on - strand, within HMPREF1058_RS02100at 288.292 kb on + strand, within HMPREF1058_RS02100at 288.292 kb on + strand, within HMPREF1058_RS02100at 288.295 kb on + strand, within HMPREF1058_RS02100at 288.295 kb on + strand, within HMPREF1058_RS02100at 288.299 kb on - strand, within HMPREF1058_RS02100at 288.325 kb on - strand, within HMPREF1058_RS02100at 288.343 kb on + strand, within HMPREF1058_RS02100at 288.363 kb on - strand, within HMPREF1058_RS02100at 288.363 kb on - strand, within HMPREF1058_RS02100at 288.374 kb on - strand, within HMPREF1058_RS02100at 288.554 kb on - strand, within HMPREF1058_RS02100at 288.612 kb on + strand, within HMPREF1058_RS02100at 288.618 kb on + strand, within HMPREF1058_RS02100at 288.646 kb on + strand, within HMPREF1058_RS02100at 288.651 kb on + strand, within HMPREF1058_RS02100at 288.677 kb on - strand, within HMPREF1058_RS02100

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse13; day1
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285,813 - HMPREF1058_RS02110 0.87 +0.1
285,855 - HMPREF1058_RS02110 0.89 -0.2
285,855 - HMPREF1058_RS02110 0.89 -0.2
285,893 - -0.1
285,902 + -0.1
285,919 + +0.0
285,920 - -0.2
285,922 - -0.3
286,112 + -0.3
286,114 + -0.0
286,122 + +0.4
286,309 + +0.5
286,359 + +0.4
286,395 - +0.1
286,502 - -1.7
286,527 - -1.4
286,547 - -3.5
286,571 + -1.9
286,726 - HMPREF1058_RS02105 0.14 -2.3
286,894 + HMPREF1058_RS02105 0.28 +0.2
286,895 - HMPREF1058_RS02105 0.28 -3.2
287,130 - HMPREF1058_RS02105 0.48 -3.0
287,135 + HMPREF1058_RS02105 0.48 -0.7
287,196 + HMPREF1058_RS02105 0.53 -0.6
287,202 + HMPREF1058_RS02105 0.54 -0.5
287,202 + HMPREF1058_RS02105 0.54 -0.6
287,203 - HMPREF1058_RS02105 0.54 -2.9
287,211 - HMPREF1058_RS02105 0.54 -2.6
287,309 + HMPREF1058_RS02105 0.63 +0.7
287,309 + HMPREF1058_RS02105 0.63 -1.4
287,316 + HMPREF1058_RS02105 0.63 -0.3
287,317 - HMPREF1058_RS02105 0.63 -2.5
287,318 + HMPREF1058_RS02105 0.63 -0.4
287,330 + HMPREF1058_RS02105 0.64 +0.8
287,331 - HMPREF1058_RS02105 0.64 -1.7
287,344 + HMPREF1058_RS02105 0.65 -0.4
287,344 + HMPREF1058_RS02105 0.65 -3.2
287,354 + HMPREF1058_RS02105 0.66 -0.8
287,381 + HMPREF1058_RS02105 0.68 -0.0
287,413 + HMPREF1058_RS02105 0.71 -0.4
287,436 - HMPREF1058_RS02105 0.73 -3.1
287,436 - HMPREF1058_RS02105 0.73 -2.5
287,441 - HMPREF1058_RS02105 0.73 -3.0
287,454 - HMPREF1058_RS02105 0.75 -3.3
287,520 + HMPREF1058_RS02105 0.80 -0.1
287,520 + HMPREF1058_RS02105 0.80 -0.2
287,540 + HMPREF1058_RS02105 0.82 +0.1
287,541 - HMPREF1058_RS02105 0.82 -2.2
287,593 - HMPREF1058_RS02105 0.86 -1.4
287,593 - HMPREF1058_RS02105 0.86 -3.1
287,595 - HMPREF1058_RS02105 0.86 -2.5
287,595 - HMPREF1058_RS02105 0.86 -1.5
287,595 - HMPREF1058_RS02105 0.86 -2.7
287,600 + HMPREF1058_RS02105 0.87 +0.7
287,644 + -0.6
287,756 + -0.5
287,767 + +0.6
287,783 + -0.6
287,798 - -2.5
287,802 - -2.4
287,806 + -0.4
287,809 - -3.8
287,810 + -1.5
287,810 + -1.7
287,823 + -3.0
287,874 + -3.9
287,902 + -2.2
287,902 + -2.3
288,047 + -2.7
288,048 - -2.5
288,048 - -3.1
288,048 - -0.5
288,048 - -4.3
288,048 - -1.7
288,287 + HMPREF1058_RS02100 0.15 -1.8
288,287 + HMPREF1058_RS02100 0.15 -1.5
288,288 - HMPREF1058_RS02100 0.15 -3.3
288,292 + HMPREF1058_RS02100 0.15 -0.2
288,292 + HMPREF1058_RS02100 0.15 -1.3
288,295 + HMPREF1058_RS02100 0.15 -2.7
288,295 + HMPREF1058_RS02100 0.15 -2.5
288,299 - HMPREF1058_RS02100 0.15 -1.7
288,325 - HMPREF1058_RS02100 0.16 -2.9
288,343 + HMPREF1058_RS02100 0.16 -2.0
288,363 - HMPREF1058_RS02100 0.17 -2.7
288,363 - HMPREF1058_RS02100 0.17 -2.2
288,374 - HMPREF1058_RS02100 0.17 -3.9
288,554 - HMPREF1058_RS02100 0.23 -1.5
288,612 + HMPREF1058_RS02100 0.25 -1.4
288,618 + HMPREF1058_RS02100 0.25 -2.7
288,646 + HMPREF1058_RS02100 0.26 -0.6
288,651 + HMPREF1058_RS02100 0.26 -2.2
288,677 - HMPREF1058_RS02100 0.27 -2.2

Or see this region's nucleotide sequence