Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS04905

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse8; day2

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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_RS04915 and HMPREF1058_RS04910 are separated by 55 nucleotidesHMPREF1058_RS04910 and HMPREF1058_RS04905 are separated by 75 nucleotidesHMPREF1058_RS04905 and HMPREF1058_RS04900 are separated by 51 nucleotidesHMPREF1058_RS04900 and HMPREF1058_RS04895 are separated by 57 nucleotides HMPREF1058_RS04915: HMPREF1058_RS04915 - hypothetical protein, at 292,623 to 293,318 _RS04915 HMPREF1058_RS04910: HMPREF1058_RS04910 - hypothetical protein, at 293,374 to 293,997 _RS04910 HMPREF1058_RS04905: HMPREF1058_RS04905 - hypothetical protein, at 294,073 to 294,498 _RS04905 HMPREF1058_RS04900: HMPREF1058_RS04900 - ankyrin repeat domain-containing protein, at 294,550 to 295,185 _RS04900 HMPREF1058_RS04895: HMPREF1058_RS04895 - SMI1/KNR4 family protein, at 295,243 to 295,842 _RS04895 Position (kb) 294 295Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 293.099 kb on + strand, within HMPREF1058_RS04915at 293.100 kb on - strand, within HMPREF1058_RS04915at 293.100 kb on - strand, within HMPREF1058_RS04915at 293.100 kb on - strand, within HMPREF1058_RS04915at 293.100 kb on - strand, within HMPREF1058_RS04915at 293.124 kb on - strand, within HMPREF1058_RS04915at 293.132 kb on + strand, within HMPREF1058_RS04915at 293.176 kb on - strand, within HMPREF1058_RS04915at 293.181 kb on + strand, within HMPREF1058_RS04915at 293.230 kb on + strand, within HMPREF1058_RS04915at 293.230 kb on + strand, within HMPREF1058_RS04915at 293.231 kb on - strand, within HMPREF1058_RS04915at 293.259 kb on - strandat 293.261 kb on - strandat 293.261 kb on - strandat 293.264 kb on + strandat 293.265 kb on - strandat 293.268 kb on + strandat 293.283 kb on - strandat 293.348 kb on - strandat 293.348 kb on - strandat 293.587 kb on - strand, within HMPREF1058_RS04910at 293.628 kb on + strand, within HMPREF1058_RS04910at 293.628 kb on + strand, within HMPREF1058_RS04910at 293.629 kb on - strand, within HMPREF1058_RS04910at 293.629 kb on - strand, within HMPREF1058_RS04910at 293.658 kb on - strand, within HMPREF1058_RS04910at 293.679 kb on + strand, within HMPREF1058_RS04910at 293.824 kb on + strand, within HMPREF1058_RS04910at 293.953 kb on - strandat 293.970 kb on + strandat 294.004 kb on + strandat 294.056 kb on + strandat 294.057 kb on - strandat 294.152 kb on + strand, within HMPREF1058_RS04905at 294.212 kb on + strand, within HMPREF1058_RS04905at 294.213 kb on - strand, within HMPREF1058_RS04905at 294.237 kb on - strand, within HMPREF1058_RS04905at 294.244 kb on - strand, within HMPREF1058_RS04905at 294.248 kb on + strand, within HMPREF1058_RS04905at 294.248 kb on + strand, within HMPREF1058_RS04905at 294.266 kb on + strand, within HMPREF1058_RS04905at 294.270 kb on + strand, within HMPREF1058_RS04905at 294.270 kb on + strand, within HMPREF1058_RS04905at 294.270 kb on + strand, within HMPREF1058_RS04905at 294.271 kb on - strand, within HMPREF1058_RS04905at 294.271 kb on - strand, within HMPREF1058_RS04905at 294.271 kb on - strand, within HMPREF1058_RS04905at 294.271 kb on - strand, within HMPREF1058_RS04905at 294.286 kb on + strand, within HMPREF1058_RS04905at 294.287 kb on - strand, within HMPREF1058_RS04905at 294.291 kb on - strand, within HMPREF1058_RS04905at 294.425 kb on - strand, within HMPREF1058_RS04905at 294.456 kb on - strandat 294.539 kb on - strandat 294.560 kb on + strandat 294.560 kb on + strandat 294.561 kb on - strandat 294.573 kb on - strandat 294.637 kb on - strand, within HMPREF1058_RS04900at 294.640 kb on - strand, within HMPREF1058_RS04900at 294.739 kb on - strand, within HMPREF1058_RS04900at 294.774 kb on - strand, within HMPREF1058_RS04900at 294.774 kb on - strand, within HMPREF1058_RS04900at 294.812 kb on + strand, within HMPREF1058_RS04900at 294.817 kb on + strand, within HMPREF1058_RS04900at 294.832 kb on + strand, within HMPREF1058_RS04900at 294.842 kb on + strand, within HMPREF1058_RS04900at 294.843 kb on - strand, within HMPREF1058_RS04900at 294.855 kb on - strand, within HMPREF1058_RS04900at 294.858 kb on + strand, within HMPREF1058_RS04900at 294.889 kb on + strand, within HMPREF1058_RS04900at 294.889 kb on + strand, within HMPREF1058_RS04900at 294.890 kb on - strand, within HMPREF1058_RS04900at 294.890 kb on - strand, within HMPREF1058_RS04900at 294.911 kb on + strand, within HMPREF1058_RS04900at 294.924 kb on + strand, within HMPREF1058_RS04900at 294.951 kb on - strand, within HMPREF1058_RS04900at 294.951 kb on - strand, within HMPREF1058_RS04900at 294.951 kb on - strand, within HMPREF1058_RS04900at 294.968 kb on + strand, within HMPREF1058_RS04900at 294.980 kb on - strand, within HMPREF1058_RS04900at 294.986 kb on + strand, within HMPREF1058_RS04900at 294.986 kb on + strand, within HMPREF1058_RS04900at 294.987 kb on - strand, within HMPREF1058_RS04900at 295.014 kb on + strand, within HMPREF1058_RS04900at 295.022 kb on + strand, within HMPREF1058_RS04900at 295.023 kb on - strand, within HMPREF1058_RS04900at 295.068 kb on - strand, within HMPREF1058_RS04900at 295.220 kb on - strandat 295.253 kb on + strandat 295.285 kb on + strandat 295.286 kb on - strandat 295.286 kb on - strandat 295.286 kb on - strandat 295.287 kb on + strandat 295.291 kb on - strandat 295.293 kb on - strandat 295.460 kb on + strand, within HMPREF1058_RS04895

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse8; day2
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293,099 + HMPREF1058_RS04915 0.68 +0.4
293,100 - HMPREF1058_RS04915 0.69 -0.9
293,100 - HMPREF1058_RS04915 0.69 +0.0
293,100 - HMPREF1058_RS04915 0.69 -0.6
293,100 - HMPREF1058_RS04915 0.69 +0.5
293,124 - HMPREF1058_RS04915 0.72 -1.2
293,132 + HMPREF1058_RS04915 0.73 +0.6
293,176 - HMPREF1058_RS04915 0.79 -0.4
293,181 + HMPREF1058_RS04915 0.80 +0.6
293,230 + HMPREF1058_RS04915 0.87 -0.6
293,230 + HMPREF1058_RS04915 0.87 -0.7
293,231 - HMPREF1058_RS04915 0.87 -1.2
293,259 - +1.2
293,261 - +0.8
293,261 - +1.3
293,264 + +0.8
293,265 - -0.0
293,268 + -0.5
293,283 - -3.1
293,348 - +0.7
293,348 - +1.6
293,587 - HMPREF1058_RS04910 0.34 +1.3
293,628 + HMPREF1058_RS04910 0.41 -0.4
293,628 + HMPREF1058_RS04910 0.41 -2.6
293,629 - HMPREF1058_RS04910 0.41 -1.6
293,629 - HMPREF1058_RS04910 0.41 +1.0
293,658 - HMPREF1058_RS04910 0.46 +1.4
293,679 + HMPREF1058_RS04910 0.49 +0.9
293,824 + HMPREF1058_RS04910 0.72 +1.0
293,953 - -0.5
293,970 + +0.6
294,004 + -2.3
294,056 + -1.6
294,057 - -0.4
294,152 + HMPREF1058_RS04905 0.19 -0.2
294,212 + HMPREF1058_RS04905 0.33 -2.0
294,213 - HMPREF1058_RS04905 0.33 -0.1
294,237 - HMPREF1058_RS04905 0.38 +0.0
294,244 - HMPREF1058_RS04905 0.40 -0.6
294,248 + HMPREF1058_RS04905 0.41 -0.4
294,248 + HMPREF1058_RS04905 0.41 -0.9
294,266 + HMPREF1058_RS04905 0.45 -2.0
294,270 + HMPREF1058_RS04905 0.46 -2.3
294,270 + HMPREF1058_RS04905 0.46 -0.7
294,270 + HMPREF1058_RS04905 0.46 -2.1
294,271 - HMPREF1058_RS04905 0.46 -0.7
294,271 - HMPREF1058_RS04905 0.46 -1.2
294,271 - HMPREF1058_RS04905 0.46 +0.6
294,271 - HMPREF1058_RS04905 0.46 +1.1
294,286 + HMPREF1058_RS04905 0.50 -2.3
294,287 - HMPREF1058_RS04905 0.50 -0.6
294,291 - HMPREF1058_RS04905 0.51 -0.5
294,425 - HMPREF1058_RS04905 0.83 +0.5
294,456 - -1.3
294,539 - +1.4
294,560 + -1.0
294,560 + +0.8
294,561 - +0.6
294,573 - +1.2
294,637 - HMPREF1058_RS04900 0.14 +0.2
294,640 - HMPREF1058_RS04900 0.14 +2.6
294,739 - HMPREF1058_RS04900 0.30 -1.6
294,774 - HMPREF1058_RS04900 0.35 +1.2
294,774 - HMPREF1058_RS04900 0.35 -1.3
294,812 + HMPREF1058_RS04900 0.41 -1.0
294,817 + HMPREF1058_RS04900 0.42 +0.4
294,832 + HMPREF1058_RS04900 0.44 +0.0
294,842 + HMPREF1058_RS04900 0.46 +1.2
294,843 - HMPREF1058_RS04900 0.46 +0.5
294,855 - HMPREF1058_RS04900 0.48 -2.3
294,858 + HMPREF1058_RS04900 0.48 -0.6
294,889 + HMPREF1058_RS04900 0.53 +1.6
294,889 + HMPREF1058_RS04900 0.53 +3.0
294,890 - HMPREF1058_RS04900 0.53 +1.3
294,890 - HMPREF1058_RS04900 0.53 +0.8
294,911 + HMPREF1058_RS04900 0.57 -1.1
294,924 + HMPREF1058_RS04900 0.59 -1.9
294,951 - HMPREF1058_RS04900 0.63 -1.4
294,951 - HMPREF1058_RS04900 0.63 +0.5
294,951 - HMPREF1058_RS04900 0.63 +1.0
294,968 + HMPREF1058_RS04900 0.66 +0.0
294,980 - HMPREF1058_RS04900 0.68 +1.4
294,986 + HMPREF1058_RS04900 0.69 +0.5
294,986 + HMPREF1058_RS04900 0.69 +0.3
294,987 - HMPREF1058_RS04900 0.69 -0.6
295,014 + HMPREF1058_RS04900 0.73 +0.4
295,022 + HMPREF1058_RS04900 0.74 -0.8
295,023 - HMPREF1058_RS04900 0.74 +0.8
295,068 - HMPREF1058_RS04900 0.81 +0.5
295,220 - +0.5
295,253 + +0.5
295,285 + +0.1
295,286 - -0.6
295,286 - +0.7
295,286 - +1.6
295,287 + +0.0
295,291 - +1.0
295,293 - -1.0
295,460 + HMPREF1058_RS04895 0.36 -1.6

Or see this region's nucleotide sequence