Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS02360

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day6

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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_RS02365 and HMPREF1058_RS02360 are separated by 186 nucleotidesHMPREF1058_RS02360 and HMPREF1058_RS02355 are separated by 12 nucleotides HMPREF1058_RS02365: HMPREF1058_RS02365 - DUF4981 domain-containing protein, at 211,399 to 214,629 _RS02365 HMPREF1058_RS02360: HMPREF1058_RS02360 - RagB/SusD family nutrient uptake outer membrane protein, at 214,816 to 216,633 _RS02360 HMPREF1058_RS02355: HMPREF1058_RS02355 - TonB-dependent receptor, at 216,646 to 219,738 _RS02355 Position (kb) 214 215 216 217Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3 4at 213.831 kb on - strand, within HMPREF1058_RS02365at 213.842 kb on + strand, within HMPREF1058_RS02365at 213.880 kb on - strand, within HMPREF1058_RS02365at 213.979 kb on + strand, within HMPREF1058_RS02365at 213.997 kb on + strand, within HMPREF1058_RS02365at 214.095 kb on + strand, within HMPREF1058_RS02365at 214.126 kb on - strand, within HMPREF1058_RS02365at 214.128 kb on + strand, within HMPREF1058_RS02365at 214.129 kb on - strand, within HMPREF1058_RS02365at 214.132 kb on - strand, within HMPREF1058_RS02365at 214.189 kb on + strand, within HMPREF1058_RS02365at 214.191 kb on + strand, within HMPREF1058_RS02365at 214.191 kb on + strand, within HMPREF1058_RS02365at 214.193 kb on + strand, within HMPREF1058_RS02365at 214.213 kb on + strand, within HMPREF1058_RS02365at 214.214 kb on - strand, within HMPREF1058_RS02365at 214.217 kb on + strand, within HMPREF1058_RS02365at 214.218 kb on - strand, within HMPREF1058_RS02365at 214.225 kb on + strand, within HMPREF1058_RS02365at 214.225 kb on + strand, within HMPREF1058_RS02365at 214.226 kb on - strand, within HMPREF1058_RS02365at 214.250 kb on - strand, within HMPREF1058_RS02365at 214.284 kb on + strand, within HMPREF1058_RS02365at 214.355 kb on - strandat 214.394 kb on + strandat 214.551 kb on + strandat 214.552 kb on - strandat 214.612 kb on + strandat 214.624 kb on - strandat 214.632 kb on + strandat 214.632 kb on + strandat 214.632 kb on + strandat 214.633 kb on - strandat 214.633 kb on - strandat 214.633 kb on - strandat 214.633 kb on - strandat 214.672 kb on + strandat 214.700 kb on + strandat 214.801 kb on + strandat 214.861 kb on + strandat 215.009 kb on + strand, within HMPREF1058_RS02360at 215.009 kb on + strand, within HMPREF1058_RS02360at 215.187 kb on + strand, within HMPREF1058_RS02360at 215.233 kb on + strand, within HMPREF1058_RS02360at 215.353 kb on - strand, within HMPREF1058_RS02360at 215.373 kb on - strand, within HMPREF1058_RS02360at 215.373 kb on - strand, within HMPREF1058_RS02360at 215.382 kb on + strand, within HMPREF1058_RS02360at 215.505 kb on - strand, within HMPREF1058_RS02360at 215.508 kb on - strand, within HMPREF1058_RS02360at 215.508 kb on - strand, within HMPREF1058_RS02360at 215.508 kb on - strand, within HMPREF1058_RS02360at 215.555 kb on - strand, within HMPREF1058_RS02360at 215.568 kb on - strand, within HMPREF1058_RS02360at 215.568 kb on - strand, within HMPREF1058_RS02360at 215.585 kb on + strand, within HMPREF1058_RS02360at 215.586 kb on - strand, within HMPREF1058_RS02360at 215.586 kb on - strand, within HMPREF1058_RS02360at 215.592 kb on + strand, within HMPREF1058_RS02360at 215.639 kb on + strand, within HMPREF1058_RS02360at 215.663 kb on + strand, within HMPREF1058_RS02360at 215.687 kb on + strand, within HMPREF1058_RS02360at 215.721 kb on - strand, within HMPREF1058_RS02360at 215.737 kb on - strand, within HMPREF1058_RS02360at 215.737 kb on - strand, within HMPREF1058_RS02360at 215.738 kb on + strand, within HMPREF1058_RS02360at 215.818 kb on + strand, within HMPREF1058_RS02360at 215.819 kb on - strand, within HMPREF1058_RS02360at 215.867 kb on + strand, within HMPREF1058_RS02360at 215.950 kb on - strand, within HMPREF1058_RS02360at 215.952 kb on - strand, within HMPREF1058_RS02360at 215.984 kb on - strand, within HMPREF1058_RS02360at 216.034 kb on - strand, within HMPREF1058_RS02360at 216.078 kb on + strand, within HMPREF1058_RS02360at 216.146 kb on + strand, within HMPREF1058_RS02360at 216.147 kb on - strand, within HMPREF1058_RS02360at 216.174 kb on + strand, within HMPREF1058_RS02360at 216.175 kb on - strand, within HMPREF1058_RS02360at 216.176 kb on + strand, within HMPREF1058_RS02360at 216.177 kb on - strand, within HMPREF1058_RS02360at 216.177 kb on - strand, within HMPREF1058_RS02360at 216.178 kb on + strand, within HMPREF1058_RS02360at 216.178 kb on + strand, within HMPREF1058_RS02360at 216.276 kb on - strand, within HMPREF1058_RS02360at 216.277 kb on - strand, within HMPREF1058_RS02360at 216.290 kb on - strand, within HMPREF1058_RS02360at 216.291 kb on + strand, within HMPREF1058_RS02360at 216.434 kb on - strand, within HMPREF1058_RS02360at 216.434 kb on - strand, within HMPREF1058_RS02360at 216.437 kb on + strand, within HMPREF1058_RS02360at 216.438 kb on - strand, within HMPREF1058_RS02360at 216.464 kb on - strandat 216.609 kb on + strandat 216.610 kb on - strandat 216.671 kb on - strandat 216.674 kb on + strandat 216.674 kb on + strandat 216.675 kb on - strandat 216.675 kb on - strandat 216.737 kb on + strandat 216.738 kb on - strandat 216.780 kb on - strandat 216.780 kb on - strandat 216.803 kb on - strandat 216.878 kb on + strandat 216.879 kb on - strandat 216.916 kb on - strandat 216.916 kb on - strandat 216.918 kb on + strandat 216.981 kb on + strand, within HMPREF1058_RS02355at 217.089 kb on + strand, within HMPREF1058_RS02355at 217.090 kb on - strand, within HMPREF1058_RS02355at 217.095 kb on + strand, within HMPREF1058_RS02355at 217.167 kb on - strand, within HMPREF1058_RS02355at 217.278 kb on - strand, within HMPREF1058_RS02355at 217.278 kb on - strand, within HMPREF1058_RS02355at 217.310 kb on + strand, within HMPREF1058_RS02355at 217.311 kb on - strand, within HMPREF1058_RS02355at 217.425 kb on + strand, within HMPREF1058_RS02355at 217.537 kb on - strand, within HMPREF1058_RS02355at 217.621 kb on - strand, within HMPREF1058_RS02355at 217.621 kb on - strand, within HMPREF1058_RS02355

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day6
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213,831 - HMPREF1058_RS02365 0.75 -1.0
213,842 + HMPREF1058_RS02365 0.76 +1.3
213,880 - HMPREF1058_RS02365 0.77 +0.4
213,979 + HMPREF1058_RS02365 0.80 +1.1
213,997 + HMPREF1058_RS02365 0.80 -0.4
214,095 + HMPREF1058_RS02365 0.83 -0.5
214,126 - HMPREF1058_RS02365 0.84 +1.8
214,128 + HMPREF1058_RS02365 0.84 -1.1
214,129 - HMPREF1058_RS02365 0.84 +0.3
214,132 - HMPREF1058_RS02365 0.85 -0.3
214,189 + HMPREF1058_RS02365 0.86 +0.4
214,191 + HMPREF1058_RS02365 0.86 +3.0
214,191 + HMPREF1058_RS02365 0.86 -1.8
214,193 + HMPREF1058_RS02365 0.86 -0.3
214,213 + HMPREF1058_RS02365 0.87 -1.7
214,214 - HMPREF1058_RS02365 0.87 -1.5
214,217 + HMPREF1058_RS02365 0.87 +1.1
214,218 - HMPREF1058_RS02365 0.87 -1.7
214,225 + HMPREF1058_RS02365 0.87 -0.9
214,225 + HMPREF1058_RS02365 0.87 +1.2
214,226 - HMPREF1058_RS02365 0.87 +1.2
214,250 - HMPREF1058_RS02365 0.88 +1.3
214,284 + HMPREF1058_RS02365 0.89 -0.1
214,355 - +0.9
214,394 + +0.8
214,551 + +1.5
214,552 - +0.0
214,612 + +0.2
214,624 - +0.2
214,632 + -1.3
214,632 + -0.1
214,632 + +1.1
214,633 - +1.4
214,633 - +0.8
214,633 - +1.0
214,633 - +1.4
214,672 + +0.5
214,700 + -2.1
214,801 + +0.5
214,861 + +2.8
215,009 + HMPREF1058_RS02360 0.11 +1.2
215,009 + HMPREF1058_RS02360 0.11 +0.3
215,187 + HMPREF1058_RS02360 0.20 +2.7
215,233 + HMPREF1058_RS02360 0.23 +0.7
215,353 - HMPREF1058_RS02360 0.30 -1.1
215,373 - HMPREF1058_RS02360 0.31 +4.3
215,373 - HMPREF1058_RS02360 0.31 -1.5
215,382 + HMPREF1058_RS02360 0.31 -0.7
215,505 - HMPREF1058_RS02360 0.38 -2.1
215,508 - HMPREF1058_RS02360 0.38 +1.5
215,508 - HMPREF1058_RS02360 0.38 -0.2
215,508 - HMPREF1058_RS02360 0.38 -0.9
215,555 - HMPREF1058_RS02360 0.41 -0.5
215,568 - HMPREF1058_RS02360 0.41 +2.7
215,568 - HMPREF1058_RS02360 0.41 -0.7
215,585 + HMPREF1058_RS02360 0.42 +2.0
215,586 - HMPREF1058_RS02360 0.42 +0.7
215,586 - HMPREF1058_RS02360 0.42 +0.9
215,592 + HMPREF1058_RS02360 0.43 -2.1
215,639 + HMPREF1058_RS02360 0.45 +1.5
215,663 + HMPREF1058_RS02360 0.47 +2.4
215,687 + HMPREF1058_RS02360 0.48 +0.1
215,721 - HMPREF1058_RS02360 0.50 -1.1
215,737 - HMPREF1058_RS02360 0.51 -0.1
215,737 - HMPREF1058_RS02360 0.51 +1.2
215,738 + HMPREF1058_RS02360 0.51 -0.9
215,818 + HMPREF1058_RS02360 0.55 -0.5
215,819 - HMPREF1058_RS02360 0.55 +1.5
215,867 + HMPREF1058_RS02360 0.58 -0.2
215,950 - HMPREF1058_RS02360 0.62 +0.5
215,952 - HMPREF1058_RS02360 0.62 +0.7
215,984 - HMPREF1058_RS02360 0.64 -1.1
216,034 - HMPREF1058_RS02360 0.67 +0.1
216,078 + HMPREF1058_RS02360 0.69 +0.0
216,146 + HMPREF1058_RS02360 0.73 -3.9
216,147 - HMPREF1058_RS02360 0.73 -1.7
216,174 + HMPREF1058_RS02360 0.75 -0.5
216,175 - HMPREF1058_RS02360 0.75 -2.7
216,176 + HMPREF1058_RS02360 0.75 +0.6
216,177 - HMPREF1058_RS02360 0.75 -3.3
216,177 - HMPREF1058_RS02360 0.75 +1.7
216,178 + HMPREF1058_RS02360 0.75 -1.1
216,178 + HMPREF1058_RS02360 0.75 +0.9
216,276 - HMPREF1058_RS02360 0.80 -0.1
216,277 - HMPREF1058_RS02360 0.80 +2.2
216,290 - HMPREF1058_RS02360 0.81 +1.6
216,291 + HMPREF1058_RS02360 0.81 +2.3
216,434 - HMPREF1058_RS02360 0.89 -0.1
216,434 - HMPREF1058_RS02360 0.89 -1.7
216,437 + HMPREF1058_RS02360 0.89 +1.6
216,438 - HMPREF1058_RS02360 0.89 +0.9
216,464 - +1.3
216,609 + -0.5
216,610 - +3.2
216,671 - +1.5
216,674 + +0.3
216,674 + +0.5
216,675 - +1.9
216,675 - -2.9
216,737 + -0.7
216,738 - +0.9
216,780 - -0.5
216,780 - -0.2
216,803 - +2.0
216,878 + -2.1
216,879 - -1.4
216,916 - -0.9
216,916 - +0.3
216,918 + -1.7
216,981 + HMPREF1058_RS02355 0.11 -1.1
217,089 + HMPREF1058_RS02355 0.14 +1.6
217,090 - HMPREF1058_RS02355 0.14 +4.1
217,095 + HMPREF1058_RS02355 0.15 +1.9
217,167 - HMPREF1058_RS02355 0.17 -0.1
217,278 - HMPREF1058_RS02355 0.20 +1.5
217,278 - HMPREF1058_RS02355 0.20 -2.4
217,310 + HMPREF1058_RS02355 0.21 -2.7
217,311 - HMPREF1058_RS02355 0.22 +0.2
217,425 + HMPREF1058_RS02355 0.25 +4.4
217,537 - HMPREF1058_RS02355 0.29 +1.8
217,621 - HMPREF1058_RS02355 0.32 +2.0
217,621 - HMPREF1058_RS02355 0.32 +0.5

Or see this region's nucleotide sequence