Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS17955

Experiment: Rhamnogalacturonan from soy bean pectic fibre 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 ntHMPREF1058_RS17960 and HMPREF1058_RS17955 are separated by 27 nucleotidesHMPREF1058_RS17955 and HMPREF1058_RS17950 are separated by 38 nucleotides HMPREF1058_RS17960: HMPREF1058_RS17960 - 8-amino-7-oxononanoate synthase, at 290,900 to 292,051 _RS17960 HMPREF1058_RS17955: HMPREF1058_RS17955 - adenosylmethionine--8-amino-7-oxononanoate transaminase, at 292,079 to 293,350 _RS17955 HMPREF1058_RS17950: HMPREF1058_RS17950 - biotin synthase BioB, at 293,389 to 294,348 _RS17950 Position (kb) 292 293 294Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 291.095 kb on - strand, within HMPREF1058_RS17960at 291.303 kb on + strand, within HMPREF1058_RS17960at 291.303 kb on + strand, within HMPREF1058_RS17960at 291.303 kb on + strand, within HMPREF1058_RS17960at 291.435 kb on + strand, within HMPREF1058_RS17960at 291.443 kb on + strand, within HMPREF1058_RS17960at 291.443 kb on + strand, within HMPREF1058_RS17960at 291.443 kb on + strand, within HMPREF1058_RS17960at 291.444 kb on - strand, within HMPREF1058_RS17960at 291.444 kb on - strand, within HMPREF1058_RS17960at 291.454 kb on - strand, within HMPREF1058_RS17960at 291.530 kb on - strand, within HMPREF1058_RS17960at 291.533 kb on + strand, within HMPREF1058_RS17960at 291.533 kb on + strand, within HMPREF1058_RS17960at 291.534 kb on - strand, within HMPREF1058_RS17960at 291.539 kb on - strand, within HMPREF1058_RS17960at 291.731 kb on - strand, within HMPREF1058_RS17960at 291.793 kb on - strand, within HMPREF1058_RS17960at 291.793 kb on - strand, within HMPREF1058_RS17960at 291.796 kb on + strand, within HMPREF1058_RS17960at 291.882 kb on - strand, within HMPREF1058_RS17960at 292.019 kb on + strandat 292.089 kb on - strandat 292.100 kb on + strandat 292.100 kb on + strandat 292.101 kb on - strandat 292.101 kb on - strandat 292.106 kb on + strandat 292.166 kb on - strandat 292.167 kb on + strandat 292.369 kb on + strand, within HMPREF1058_RS17955at 292.370 kb on - strand, within HMPREF1058_RS17955at 292.435 kb on + strand, within HMPREF1058_RS17955at 292.521 kb on + strand, within HMPREF1058_RS17955at 292.540 kb on + strand, within HMPREF1058_RS17955at 292.544 kb on + strand, within HMPREF1058_RS17955at 292.668 kb on - strand, within HMPREF1058_RS17955at 292.718 kb on + strand, within HMPREF1058_RS17955at 292.724 kb on - strand, within HMPREF1058_RS17955at 292.787 kb on + strand, within HMPREF1058_RS17955at 292.787 kb on + strand, within HMPREF1058_RS17955at 292.787 kb on + strand, within HMPREF1058_RS17955at 292.787 kb on + strand, within HMPREF1058_RS17955at 292.788 kb on - strand, within HMPREF1058_RS17955at 292.943 kb on - strand, within HMPREF1058_RS17955at 292.986 kb on + strand, within HMPREF1058_RS17955at 293.195 kb on + strand, within HMPREF1058_RS17955at 293.195 kb on + strand, within HMPREF1058_RS17955at 293.195 kb on + strand, within HMPREF1058_RS17955at 293.196 kb on - strand, within HMPREF1058_RS17955at 293.225 kb on + strandat 293.225 kb on + strandat 293.252 kb on + strandat 293.252 kb on + strandat 293.252 kb on + strandat 293.255 kb on - strandat 293.256 kb on + strandat 293.257 kb on - strandat 293.257 kb on - strandat 293.283 kb on + strandat 293.284 kb on - strandat 293.311 kb on + strandat 293.311 kb on + strandat 293.325 kb on - strandat 293.351 kb on - strandat 293.370 kb on - strandat 293.375 kb on - strandat 293.414 kb on - strandat 293.447 kb on - strandat 293.447 kb on - strandat 293.481 kb on + strandat 293.492 kb on + strand, within HMPREF1058_RS17950at 293.492 kb on + strand, within HMPREF1058_RS17950at 293.493 kb on - strand, within HMPREF1058_RS17950at 293.493 kb on - strand, within HMPREF1058_RS17950at 293.493 kb on - strand, within HMPREF1058_RS17950at 293.646 kb on + strand, within HMPREF1058_RS17950at 293.665 kb on - strand, within HMPREF1058_RS17950at 293.678 kb on - strand, within HMPREF1058_RS17950at 293.698 kb on - strand, within HMPREF1058_RS17950at 293.758 kb on + strand, within HMPREF1058_RS17950at 293.820 kb on + strand, within HMPREF1058_RS17950at 293.820 kb on + strand, within HMPREF1058_RS17950at 293.821 kb on - strand, within HMPREF1058_RS17950at 293.828 kb on - strand, within HMPREF1058_RS17950at 293.863 kb on - strand, within HMPREF1058_RS17950at 293.863 kb on - strand, within HMPREF1058_RS17950at 293.966 kb on + strand, within HMPREF1058_RS17950at 294.104 kb on + strand, within HMPREF1058_RS17950at 294.248 kb on + strand, within HMPREF1058_RS17950at 294.350 kb on + strandat 294.350 kb on + strandat 294.350 kb on + strandat 294.350 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Rhamnogalacturonan from soy bean pectic fibre 5 mg/ml (C)
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291,095 - HMPREF1058_RS17960 0.17 -1.4
291,303 + HMPREF1058_RS17960 0.35 -2.1
291,303 + HMPREF1058_RS17960 0.35 -2.0
291,303 + HMPREF1058_RS17960 0.35 -2.1
291,435 + HMPREF1058_RS17960 0.46 -0.3
291,443 + HMPREF1058_RS17960 0.47 +1.3
291,443 + HMPREF1058_RS17960 0.47 -2.4
291,443 + HMPREF1058_RS17960 0.47 -1.8
291,444 - HMPREF1058_RS17960 0.47 -0.8
291,444 - HMPREF1058_RS17960 0.47 +0.7
291,454 - HMPREF1058_RS17960 0.48 +2.3
291,530 - HMPREF1058_RS17960 0.55 -2.1
291,533 + HMPREF1058_RS17960 0.55 -2.4
291,533 + HMPREF1058_RS17960 0.55 +0.2
291,534 - HMPREF1058_RS17960 0.55 -1.7
291,539 - HMPREF1058_RS17960 0.55 +2.3
291,731 - HMPREF1058_RS17960 0.72 -2.7
291,793 - HMPREF1058_RS17960 0.78 -0.7
291,793 - HMPREF1058_RS17960 0.78 -2.4
291,796 + HMPREF1058_RS17960 0.78 -0.9
291,882 - HMPREF1058_RS17960 0.85 -1.4
292,019 + -2.4
292,089 - +1.0
292,100 + -0.9
292,100 + +0.7
292,101 - -1.6
292,101 - -0.3
292,106 + -1.1
292,166 - -3.4
292,167 + -2.1
292,369 + HMPREF1058_RS17955 0.23 -2.1
292,370 - HMPREF1058_RS17955 0.23 -0.0
292,435 + HMPREF1058_RS17955 0.28 -2.5
292,521 + HMPREF1058_RS17955 0.35 -2.4
292,540 + HMPREF1058_RS17955 0.36 -1.4
292,544 + HMPREF1058_RS17955 0.37 -0.7
292,668 - HMPREF1058_RS17955 0.46 -2.0
292,718 + HMPREF1058_RS17955 0.50 -2.1
292,724 - HMPREF1058_RS17955 0.51 -1.7
292,787 + HMPREF1058_RS17955 0.56 -2.0
292,787 + HMPREF1058_RS17955 0.56 -0.3
292,787 + HMPREF1058_RS17955 0.56 -2.1
292,787 + HMPREF1058_RS17955 0.56 +0.5
292,788 - HMPREF1058_RS17955 0.56 -1.0
292,943 - HMPREF1058_RS17955 0.68 -2.3
292,986 + HMPREF1058_RS17955 0.71 -2.0
293,195 + HMPREF1058_RS17955 0.88 -0.3
293,195 + HMPREF1058_RS17955 0.88 -2.9
293,195 + HMPREF1058_RS17955 0.88 -1.7
293,196 - HMPREF1058_RS17955 0.88 -0.1
293,225 + -1.6
293,225 + -0.9
293,252 + -0.9
293,252 + -0.8
293,252 + -1.7
293,255 - -2.6
293,256 + -2.9
293,257 - -0.4
293,257 - -2.4
293,283 + -1.3
293,284 - -1.9
293,311 + -0.9
293,311 + -0.0
293,325 - -0.0
293,351 - +0.7
293,370 - -0.1
293,375 - +1.1
293,414 - +0.6
293,447 - -2.3
293,447 - -1.4
293,481 + -1.3
293,492 + HMPREF1058_RS17950 0.11 -0.0
293,492 + HMPREF1058_RS17950 0.11 -2.1
293,493 - HMPREF1058_RS17950 0.11 +0.9
293,493 - HMPREF1058_RS17950 0.11 -2.0
293,493 - HMPREF1058_RS17950 0.11 -2.4
293,646 + HMPREF1058_RS17950 0.27 -1.6
293,665 - HMPREF1058_RS17950 0.29 -0.5
293,678 - HMPREF1058_RS17950 0.30 -1.9
293,698 - HMPREF1058_RS17950 0.32 -0.1
293,758 + HMPREF1058_RS17950 0.38 -1.9
293,820 + HMPREF1058_RS17950 0.45 -1.5
293,820 + HMPREF1058_RS17950 0.45 -1.6
293,821 - HMPREF1058_RS17950 0.45 -0.2
293,828 - HMPREF1058_RS17950 0.46 -1.1
293,863 - HMPREF1058_RS17950 0.49 -0.5
293,863 - HMPREF1058_RS17950 0.49 -2.4
293,966 + HMPREF1058_RS17950 0.60 +1.5
294,104 + HMPREF1058_RS17950 0.74 -0.1
294,248 + HMPREF1058_RS17950 0.89 -1.0
294,350 + -1.4
294,350 + -2.3
294,350 + -0.7
294,350 + +1.3

Or see this region's nucleotide sequence