Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS02100

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse18; 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_RS02105 and HMPREF1058_RS02100 are separated by 53 nucleotidesHMPREF1058_RS02100 and HMPREF1058_RS02095 are separated by 11 nucleotides 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 HMPREF1058_RS02095: HMPREF1058_RS02095 - efflux transporter outer membrane subunit, at 291,046 to 292,431 _RS02095 Position (kb) 287 288 289 290 291 292Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1at 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_RS02100at 288.828 kb on + strand, within HMPREF1058_RS02100at 288.874 kb on - strand, within HMPREF1058_RS02100at 288.876 kb on - strand, within HMPREF1058_RS02100at 288.876 kb on - strand, within HMPREF1058_RS02100at 288.877 kb on + strand, within HMPREF1058_RS02100at 288.877 kb on + strand, within HMPREF1058_RS02100at 288.878 kb on - strand, within HMPREF1058_RS02100at 289.385 kb on - strand, within HMPREF1058_RS02100at 289.398 kb on - strand, within HMPREF1058_RS02100at 289.410 kb on + strand, within HMPREF1058_RS02100at 289.410 kb on + strand, within HMPREF1058_RS02100at 289.410 kb on + strand, within HMPREF1058_RS02100at 289.411 kb on - strand, within HMPREF1058_RS02100at 289.411 kb on - strand, within HMPREF1058_RS02100at 289.413 kb on + strand, within HMPREF1058_RS02100at 289.476 kb on + strand, within HMPREF1058_RS02100at 289.476 kb on + strand, within HMPREF1058_RS02100at 289.561 kb on + strand, within HMPREF1058_RS02100at 289.693 kb on + strand, within HMPREF1058_RS02100at 289.699 kb on + strand, within HMPREF1058_RS02100at 289.759 kb on + strand, within HMPREF1058_RS02100at 289.759 kb on + strand, within HMPREF1058_RS02100at 289.760 kb on - strand, within HMPREF1058_RS02100at 289.865 kb on - strand, within HMPREF1058_RS02100at 289.902 kb on - strand, within HMPREF1058_RS02100at 289.902 kb on - strand, within HMPREF1058_RS02100at 289.909 kb on - strand, within HMPREF1058_RS02100at 289.919 kb on + strand, within HMPREF1058_RS02100at 289.920 kb on - strand, within HMPREF1058_RS02100at 289.921 kb on + strand, within HMPREF1058_RS02100at 289.921 kb on + strand, within HMPREF1058_RS02100at 289.967 kb on - strand, within HMPREF1058_RS02100at 289.991 kb on + strand, within HMPREF1058_RS02100at 289.993 kb on + strand, within HMPREF1058_RS02100at 289.993 kb on + strand, within HMPREF1058_RS02100at 289.994 kb on - strand, within HMPREF1058_RS02100at 289.994 kb on - strand, within HMPREF1058_RS02100at 289.994 kb on - strand, within HMPREF1058_RS02100at 289.994 kb on - strand, within HMPREF1058_RS02100at 290.042 kb on - strand, within HMPREF1058_RS02100at 290.048 kb on - strand, within HMPREF1058_RS02100at 290.069 kb on + strand, within HMPREF1058_RS02100at 290.084 kb on + strand, within HMPREF1058_RS02100at 290.174 kb on - strand, within HMPREF1058_RS02100at 290.176 kb on + strand, within HMPREF1058_RS02100at 290.185 kb on - strand, within HMPREF1058_RS02100at 290.185 kb on - strand, within HMPREF1058_RS02100at 290.210 kb on - strand, within HMPREF1058_RS02100at 290.275 kb on + strand, within HMPREF1058_RS02100at 290.275 kb on + strand, within HMPREF1058_RS02100at 290.276 kb on - strand, within HMPREF1058_RS02100at 290.314 kb on + strand, within HMPREF1058_RS02100at 290.416 kb on + strand, within HMPREF1058_RS02100at 290.417 kb on - strand, within HMPREF1058_RS02100at 290.417 kb on - strand, within HMPREF1058_RS02100at 290.489 kb on + strand, within HMPREF1058_RS02100at 290.498 kb on + strand, within HMPREF1058_RS02100at 290.549 kb on - strand, within HMPREF1058_RS02100at 290.630 kb on - strand, within HMPREF1058_RS02100at 290.635 kb on + strand, within HMPREF1058_RS02100at 290.636 kb on - strand, within HMPREF1058_RS02100at 290.695 kb on - strand, within HMPREF1058_RS02100at 290.857 kb on + strandat 290.884 kb on + strandat 290.885 kb on - strandat 290.896 kb on + strandat 290.949 kb on + strandat 290.993 kb on - strandat 291.020 kb on + strandat 291.021 kb on - strandat 291.021 kb on - strandat 291.028 kb on + strandat 291.028 kb on + strandat 291.029 kb on - strandat 291.083 kb on + strandat 291.103 kb on + strandat 291.103 kb on + strandat 291.104 kb on - strandat 291.106 kb on - strandat 291.174 kb on + strandat 291.192 kb on + strand, within HMPREF1058_RS02095at 291.192 kb on + strand, within HMPREF1058_RS02095at 291.281 kb on + strand, within HMPREF1058_RS02095at 291.281 kb on + strand, within HMPREF1058_RS02095at 291.282 kb on - strand, within HMPREF1058_RS02095at 291.282 kb on - strand, within HMPREF1058_RS02095at 291.415 kb on - strand, within HMPREF1058_RS02095at 291.422 kb on - strand, within HMPREF1058_RS02095at 291.423 kb on + strand, within HMPREF1058_RS02095at 291.423 kb on + strand, within HMPREF1058_RS02095at 291.424 kb on - strand, within HMPREF1058_RS02095at 291.424 kb on - strand, within HMPREF1058_RS02095at 291.428 kb on + strand, within HMPREF1058_RS02095at 291.514 kb on - strand, within HMPREF1058_RS02095at 291.568 kb on + strand, within HMPREF1058_RS02095at 291.569 kb on - strand, within HMPREF1058_RS02095at 291.703 kb on - strand, within HMPREF1058_RS02095at 291.809 kb on + strand, within HMPREF1058_RS02095at 291.810 kb on - strand, within HMPREF1058_RS02095at 291.928 kb on + strandat 291.932 kb on - strand, within HMPREF1058_RS02095at 291.932 kb on - strand, within HMPREF1058_RS02095at 291.932 kb on - strand, within HMPREF1058_RS02095at 291.933 kb on + strand, within HMPREF1058_RS02095at 291.934 kb on - strand, within HMPREF1058_RS02095at 291.985 kb on - strand, within HMPREF1058_RS02095at 291.999 kb on + strand, within HMPREF1058_RS02095

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse18; day1
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286,894 + HMPREF1058_RS02105 0.28 +0.0
286,895 - HMPREF1058_RS02105 0.28 -4.2
287,130 - HMPREF1058_RS02105 0.48 -2.1
287,135 + HMPREF1058_RS02105 0.48 -0.2
287,196 + HMPREF1058_RS02105 0.53 -0.6
287,202 + HMPREF1058_RS02105 0.54 -0.2
287,202 + HMPREF1058_RS02105 0.54 -0.4
287,203 - HMPREF1058_RS02105 0.54 -2.0
287,211 - HMPREF1058_RS02105 0.54 -2.4
287,309 + HMPREF1058_RS02105 0.63 +0.3
287,309 + HMPREF1058_RS02105 0.63 +0.0
287,316 + HMPREF1058_RS02105 0.63 -0.5
287,317 - HMPREF1058_RS02105 0.63 -1.7
287,318 + HMPREF1058_RS02105 0.63 +0.1
287,330 + HMPREF1058_RS02105 0.64 -0.2
287,331 - HMPREF1058_RS02105 0.64 -1.1
287,344 + HMPREF1058_RS02105 0.65 -0.8
287,344 + HMPREF1058_RS02105 0.65 -0.9
287,354 + HMPREF1058_RS02105 0.66 -0.2
287,381 + HMPREF1058_RS02105 0.68 -0.2
287,413 + HMPREF1058_RS02105 0.71 -0.4
287,436 - HMPREF1058_RS02105 0.73 -3.1
287,436 - HMPREF1058_RS02105 0.73 -1.9
287,441 - HMPREF1058_RS02105 0.73 -2.0
287,454 - HMPREF1058_RS02105 0.75 -1.7
287,520 + HMPREF1058_RS02105 0.80 +0.4
287,520 + HMPREF1058_RS02105 0.80 -0.2
287,540 + HMPREF1058_RS02105 0.82 -0.2
287,541 - HMPREF1058_RS02105 0.82 -2.2
287,593 - HMPREF1058_RS02105 0.86 -1.4
287,593 - HMPREF1058_RS02105 0.86 -5.1
287,595 - HMPREF1058_RS02105 0.86 -1.8
287,595 - HMPREF1058_RS02105 0.86 -0.9
287,595 - HMPREF1058_RS02105 0.86 -2.5
287,600 + HMPREF1058_RS02105 0.87 +1.0
287,644 + -0.7
287,756 + +0.1
287,767 + +0.1
287,783 + -0.1
287,798 - -1.9
287,802 - -1.8
287,806 + -0.2
287,809 - -2.8
287,810 + -2.3
287,810 + -0.3
287,823 + -2.3
287,874 + -2.1
287,902 + -1.5
287,902 + -2.0
288,047 + -2.8
288,048 - -2.5
288,048 - -1.4
288,048 - -2.5
288,048 - -1.8
288,048 - -1.4
288,287 + HMPREF1058_RS02100 0.15 -1.3
288,287 + HMPREF1058_RS02100 0.15 -1.2
288,288 - HMPREF1058_RS02100 0.15 -2.8
288,292 + HMPREF1058_RS02100 0.15 -0.2
288,292 + HMPREF1058_RS02100 0.15 -0.4
288,295 + HMPREF1058_RS02100 0.15 -1.7
288,295 + HMPREF1058_RS02100 0.15 -0.5
288,299 - HMPREF1058_RS02100 0.15 -1.8
288,325 - HMPREF1058_RS02100 0.16 -2.3
288,343 + HMPREF1058_RS02100 0.16 -2.4
288,363 - HMPREF1058_RS02100 0.17 -1.8
288,363 - HMPREF1058_RS02100 0.17 -1.2
288,374 - HMPREF1058_RS02100 0.17 -3.9
288,554 - HMPREF1058_RS02100 0.23 -2.5
288,612 + HMPREF1058_RS02100 0.25 -1.0
288,618 + HMPREF1058_RS02100 0.25 -1.9
288,646 + HMPREF1058_RS02100 0.26 -1.1
288,651 + HMPREF1058_RS02100 0.26 -2.6
288,677 - HMPREF1058_RS02100 0.27 -2.2
288,828 + HMPREF1058_RS02100 0.31 -1.8
288,874 - HMPREF1058_RS02100 0.33 -1.9
288,876 - HMPREF1058_RS02100 0.33 -2.1
288,876 - HMPREF1058_RS02100 0.33 -1.5
288,877 + HMPREF1058_RS02100 0.33 -1.8
288,877 + HMPREF1058_RS02100 0.33 -2.9
288,878 - HMPREF1058_RS02100 0.33 -2.3
289,385 - HMPREF1058_RS02100 0.49 -3.1
289,398 - HMPREF1058_RS02100 0.49 -2.0
289,410 + HMPREF1058_RS02100 0.50 -0.9
289,410 + HMPREF1058_RS02100 0.50 -0.7
289,410 + HMPREF1058_RS02100 0.50 -1.4
289,411 - HMPREF1058_RS02100 0.50 -2.5
289,411 - HMPREF1058_RS02100 0.50 -2.0
289,413 + HMPREF1058_RS02100 0.50 -0.2
289,476 + HMPREF1058_RS02100 0.52 -1.2
289,476 + HMPREF1058_RS02100 0.52 -0.8
289,561 + HMPREF1058_RS02100 0.54 -0.9
289,693 + HMPREF1058_RS02100 0.58 -0.5
289,699 + HMPREF1058_RS02100 0.58 -0.2
289,759 + HMPREF1058_RS02100 0.60 -2.2
289,759 + HMPREF1058_RS02100 0.60 -1.2
289,760 - HMPREF1058_RS02100 0.60 -1.9
289,865 - HMPREF1058_RS02100 0.64 -1.0
289,902 - HMPREF1058_RS02100 0.65 -0.5
289,902 - HMPREF1058_RS02100 0.65 -3.1
289,909 - HMPREF1058_RS02100 0.65 -3.2
289,919 + HMPREF1058_RS02100 0.65 -1.1
289,920 - HMPREF1058_RS02100 0.65 -2.0
289,921 + HMPREF1058_RS02100 0.65 -0.3
289,921 + HMPREF1058_RS02100 0.65 -0.3
289,967 - HMPREF1058_RS02100 0.67 -2.8
289,991 + HMPREF1058_RS02100 0.68 -0.3
289,993 + HMPREF1058_RS02100 0.68 -0.7
289,993 + HMPREF1058_RS02100 0.68 -0.7
289,994 - HMPREF1058_RS02100 0.68 -1.7
289,994 - HMPREF1058_RS02100 0.68 -3.2
289,994 - HMPREF1058_RS02100 0.68 -3.9
289,994 - HMPREF1058_RS02100 0.68 -2.3
290,042 - HMPREF1058_RS02100 0.69 -1.6
290,048 - HMPREF1058_RS02100 0.69 -1.5
290,069 + HMPREF1058_RS02100 0.70 -0.0
290,084 + HMPREF1058_RS02100 0.70 -0.6
290,174 - HMPREF1058_RS02100 0.73 -2.1
290,176 + HMPREF1058_RS02100 0.73 -0.0
290,185 - HMPREF1058_RS02100 0.74 -2.8
290,185 - HMPREF1058_RS02100 0.74 -2.3
290,210 - HMPREF1058_RS02100 0.74 -2.3
290,275 + HMPREF1058_RS02100 0.76 -0.3
290,275 + HMPREF1058_RS02100 0.76 -0.3
290,276 - HMPREF1058_RS02100 0.76 -1.7
290,314 + HMPREF1058_RS02100 0.78 +0.1
290,416 + HMPREF1058_RS02100 0.81 -0.2
290,417 - HMPREF1058_RS02100 0.81 -1.2
290,417 - HMPREF1058_RS02100 0.81 -2.1
290,489 + HMPREF1058_RS02100 0.83 -0.2
290,498 + HMPREF1058_RS02100 0.83 -1.4
290,549 - HMPREF1058_RS02100 0.85 -1.4
290,630 - HMPREF1058_RS02100 0.87 -2.5
290,635 + HMPREF1058_RS02100 0.88 -0.6
290,636 - HMPREF1058_RS02100 0.88 -2.8
290,695 - HMPREF1058_RS02100 0.89 -2.0
290,857 + +0.0
290,884 + +0.1
290,885 - -3.1
290,896 + +0.3
290,949 + +0.4
290,993 - -2.4
291,020 + -0.2
291,021 - -1.8
291,021 - -2.0
291,028 + -0.5
291,028 + +0.4
291,029 - -1.9
291,083 + -1.4
291,103 + -2.2
291,103 + -1.5
291,104 - -3.0
291,106 - -3.8
291,174 + -1.5
291,192 + HMPREF1058_RS02095 0.11 -1.3
291,192 + HMPREF1058_RS02095 0.11 -0.7
291,281 + HMPREF1058_RS02095 0.17 +1.4
291,281 + HMPREF1058_RS02095 0.17 -0.8
291,282 - HMPREF1058_RS02095 0.17 -2.4
291,282 - HMPREF1058_RS02095 0.17 -0.9
291,415 - HMPREF1058_RS02095 0.27 -2.8
291,422 - HMPREF1058_RS02095 0.27 -0.6
291,423 + HMPREF1058_RS02095 0.27 -1.1
291,423 + HMPREF1058_RS02095 0.27 -1.3
291,424 - HMPREF1058_RS02095 0.27 -1.1
291,424 - HMPREF1058_RS02095 0.27 -2.6
291,428 + HMPREF1058_RS02095 0.28 -0.5
291,514 - HMPREF1058_RS02095 0.34 -0.4
291,568 + HMPREF1058_RS02095 0.38 -1.1
291,569 - HMPREF1058_RS02095 0.38 -2.2
291,703 - HMPREF1058_RS02095 0.47 -2.9
291,809 + HMPREF1058_RS02095 0.55 -0.8
291,810 - HMPREF1058_RS02095 0.55 -2.0
291,928 + -0.2
291,932 - HMPREF1058_RS02095 0.64 -1.2
291,932 - HMPREF1058_RS02095 0.64 -2.2
291,932 - HMPREF1058_RS02095 0.64 -3.3
291,933 + HMPREF1058_RS02095 0.64 -0.9
291,934 - HMPREF1058_RS02095 0.64 -2.6
291,985 - HMPREF1058_RS02095 0.68 -2.6
291,999 + HMPREF1058_RS02095 0.69 -0.5

Or see this region's nucleotide sequence