Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS18180

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse20; day14

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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_RS18190 and HMPREF1058_RS18180 are separated by 758 nucleotidesHMPREF1058_RS18180 and HMPREF1058_RS18175 are separated by 4 nucleotidesHMPREF1058_RS18175 and HMPREF1058_RS18170 overlap by 35 nucleotides HMPREF1058_RS18190: HMPREF1058_RS18190 - hypothetical protein, at 238,964 to 239,716 _RS18190 HMPREF1058_RS18180: HMPREF1058_RS18180 - hypothetical protein, at 240,475 to 241,200 _RS18180 HMPREF1058_RS18175: HMPREF1058_RS18175 - relaxase/mobilization nuclease domain-containing protein, at 241,205 to 242,131 _RS18175 HMPREF1058_RS18170: HMPREF1058_RS18170 - MobC family plasmid mobilization relaxosome protein, at 242,097 to 242,480 _RS18170 Position (kb) 240 241 242Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 239.506 kb on - strand, within HMPREF1058_RS18190at 239.509 kb on - strand, within HMPREF1058_RS18190at 239.553 kb on + strand, within HMPREF1058_RS18190at 239.560 kb on + strand, within HMPREF1058_RS18190at 239.561 kb on - strand, within HMPREF1058_RS18190at 239.561 kb on - strand, within HMPREF1058_RS18190at 239.564 kb on + strand, within HMPREF1058_RS18190at 239.564 kb on + strand, within HMPREF1058_RS18190at 239.564 kb on + strand, within HMPREF1058_RS18190at 239.564 kb on + strand, within HMPREF1058_RS18190at 239.564 kb on + strand, within HMPREF1058_RS18190at 239.565 kb on - strand, within HMPREF1058_RS18190at 239.646 kb on + strandat 239.741 kb on + strandat 239.742 kb on - strandat 239.742 kb on - strandat 239.821 kb on - strandat 239.838 kb on + strandat 239.838 kb on + strandat 239.838 kb on + strandat 239.838 kb on + strandat 239.839 kb on - strandat 239.839 kb on - strandat 239.839 kb on - strandat 239.839 kb on - strandat 239.839 kb on - strandat 239.839 kb on - strandat 239.839 kb on - strandat 239.875 kb on - strandat 239.888 kb on + strandat 239.905 kb on + strandat 239.926 kb on - strandat 239.971 kb on + strandat 239.972 kb on - strandat 239.979 kb on + strandat 239.991 kb on + strandat 239.992 kb on - strandat 239.992 kb on - strandat 239.995 kb on + strandat 239.996 kb on - strandat 240.010 kb on + strandat 240.084 kb on + strandat 240.084 kb on + strandat 240.088 kb on + strandat 240.132 kb on - strandat 240.132 kb on - strandat 240.153 kb on - strandat 240.202 kb on - strandat 240.205 kb on + strandat 240.288 kb on + strandat 240.289 kb on - strandat 240.289 kb on - strandat 240.289 kb on - strandat 240.289 kb on - strandat 240.331 kb on - strandat 240.428 kb on - strandat 240.455 kb on + strandat 240.455 kb on + strandat 240.455 kb on + strandat 240.456 kb on - strandat 240.456 kb on - strandat 240.701 kb on + strand, within HMPREF1058_RS18180at 240.702 kb on - strand, within HMPREF1058_RS18180at 240.706 kb on + strand, within HMPREF1058_RS18180at 240.707 kb on - strand, within HMPREF1058_RS18180at 240.708 kb on + strand, within HMPREF1058_RS18180at 240.781 kb on - strand, within HMPREF1058_RS18180at 240.781 kb on - strand, within HMPREF1058_RS18180at 240.898 kb on + strand, within HMPREF1058_RS18180at 240.952 kb on + strand, within HMPREF1058_RS18180at 240.952 kb on + strand, within HMPREF1058_RS18180at 240.955 kb on - strand, within HMPREF1058_RS18180at 241.200 kb on + strandat 241.206 kb on + strandat 241.208 kb on + strandat 241.214 kb on - strandat 241.214 kb on - strandat 241.328 kb on - strand, within HMPREF1058_RS18175at 241.426 kb on + strand, within HMPREF1058_RS18175at 241.877 kb on - strand, within HMPREF1058_RS18175at 241.895 kb on + strand, within HMPREF1058_RS18175at 241.971 kb on - strand, within HMPREF1058_RS18175at 241.997 kb on - strand, within HMPREF1058_RS18175at 242.054 kb on + strandat 242.054 kb on + strandat 242.055 kb on - strandat 242.060 kb on + strandat 242.082 kb on + strandat 242.145 kb on + strand, within HMPREF1058_RS18170

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse20; day14
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239,506 - HMPREF1058_RS18190 0.72 +0.1
239,509 - HMPREF1058_RS18190 0.72 +0.2
239,553 + HMPREF1058_RS18190 0.78 -0.9
239,560 + HMPREF1058_RS18190 0.79 -2.5
239,561 - HMPREF1058_RS18190 0.79 +0.3
239,561 - HMPREF1058_RS18190 0.79 +1.7
239,564 + HMPREF1058_RS18190 0.80 -2.4
239,564 + HMPREF1058_RS18190 0.80 -0.5
239,564 + HMPREF1058_RS18190 0.80 +0.3
239,564 + HMPREF1058_RS18190 0.80 +0.1
239,564 + HMPREF1058_RS18190 0.80 +1.2
239,565 - HMPREF1058_RS18190 0.80 +0.3
239,646 + -0.2
239,741 + +0.2
239,742 - +2.2
239,742 - -1.9
239,821 - -1.1
239,838 + -3.4
239,838 + -0.7
239,838 + +0.2
239,838 + +0.9
239,839 - +0.5
239,839 - +1.6
239,839 - -0.2
239,839 - -2.6
239,839 - -1.8
239,839 - -0.0
239,839 - -1.6
239,875 - -0.0
239,888 + +1.2
239,905 + -1.9
239,926 - +0.5
239,971 + -2.3
239,972 - +1.1
239,979 + -0.2
239,991 + +1.5
239,992 - +0.7
239,992 - -0.8
239,995 + +1.2
239,996 - +1.6
240,010 + +0.7
240,084 + -3.3
240,084 + +1.3
240,088 + +0.7
240,132 - +2.6
240,132 - +0.1
240,153 - -1.3
240,202 - +0.4
240,205 + -1.7
240,288 + +0.9
240,289 - +0.7
240,289 - -0.2
240,289 - -1.3
240,289 - -1.9
240,331 - +0.1
240,428 - +1.1
240,455 + +0.2
240,455 + -2.5
240,455 + +1.3
240,456 - -3.1
240,456 - -2.9
240,701 + HMPREF1058_RS18180 0.31 +0.9
240,702 - HMPREF1058_RS18180 0.31 +1.1
240,706 + HMPREF1058_RS18180 0.32 -3.7
240,707 - HMPREF1058_RS18180 0.32 +0.3
240,708 + HMPREF1058_RS18180 0.32 +1.2
240,781 - HMPREF1058_RS18180 0.42 -0.3
240,781 - HMPREF1058_RS18180 0.42 -1.2
240,898 + HMPREF1058_RS18180 0.58 +1.3
240,952 + HMPREF1058_RS18180 0.66 +2.0
240,952 + HMPREF1058_RS18180 0.66 +1.9
240,955 - HMPREF1058_RS18180 0.66 -1.0
241,200 + -0.7
241,206 + -0.1
241,208 + +0.5
241,214 - -1.0
241,214 - -2.3
241,328 - HMPREF1058_RS18175 0.13 -1.7
241,426 + HMPREF1058_RS18175 0.24 -0.4
241,877 - HMPREF1058_RS18175 0.72 -0.3
241,895 + HMPREF1058_RS18175 0.74 -0.1
241,971 - HMPREF1058_RS18175 0.83 +0.2
241,997 - HMPREF1058_RS18175 0.85 +1.0
242,054 + +0.1
242,054 + -0.3
242,055 - +1.8
242,060 + -0.3
242,082 + -0.2
242,145 + HMPREF1058_RS18170 0.12 -0.3

Or see this region's nucleotide sequence