Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS12045

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse17; day7

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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_RS0119610 and HMPREF1058_RS12045 are separated by 729 nucleotidesHMPREF1058_RS12045 and HMPREF1058_RS12040 are separated by 137 nucleotides HMPREF1058_RS0119610: HMPREF1058_RS0119610 - TonB-dependent receptor, at 215,557 to 217,956 _RS0119610 HMPREF1058_RS12045: HMPREF1058_RS12045 - DUF3874 domain-containing protein, at 218,686 to 219,936 _RS12045 HMPREF1058_RS12040: HMPREF1058_RS12040 - butyrate kinase, at 220,074 to 221,138 _RS12040 Position (kb) 218 219 220Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 217.694 kb on + strand, within HMPREF1058_RS0119610at 217.696 kb on + strand, within HMPREF1058_RS0119610at 217.717 kb on + strandat 217.823 kb on + strandat 217.869 kb on + strandat 217.869 kb on + strandat 217.869 kb on + strandat 217.871 kb on + strandat 217.871 kb on + strandat 217.872 kb on - strandat 217.872 kb on - strandat 217.872 kb on - strandat 217.872 kb on - strandat 217.876 kb on - strandat 217.876 kb on - strandat 217.876 kb on - strandat 217.899 kb on - strandat 217.943 kb on - strandat 217.955 kb on - strandat 217.992 kb on - strandat 218.007 kb on - strandat 218.097 kb on - strandat 218.123 kb on + strandat 218.124 kb on - strandat 218.138 kb on + strandat 218.165 kb on - strandat 218.200 kb on - strandat 218.232 kb on - strandat 218.269 kb on + strandat 218.291 kb on + strandat 218.396 kb on + strandat 218.418 kb on + strandat 218.448 kb on - strandat 218.651 kb on - strandat 218.684 kb on + strandat 218.685 kb on - strandat 218.810 kb on + strandat 218.830 kb on + strand, within HMPREF1058_RS12045at 218.910 kb on + strand, within HMPREF1058_RS12045at 218.911 kb on - strand, within HMPREF1058_RS12045at 218.911 kb on - strand, within HMPREF1058_RS12045at 218.911 kb on - strand, within HMPREF1058_RS12045at 218.914 kb on + strand, within HMPREF1058_RS12045at 218.915 kb on - strand, within HMPREF1058_RS12045at 218.915 kb on - strand, within HMPREF1058_RS12045at 218.915 kb on - strand, within HMPREF1058_RS12045at 218.915 kb on - strand, within HMPREF1058_RS12045at 218.916 kb on + strand, within HMPREF1058_RS12045at 218.917 kb on - strand, within HMPREF1058_RS12045at 218.917 kb on - strand, within HMPREF1058_RS12045at 218.922 kb on - strand, within HMPREF1058_RS12045at 218.924 kb on + strand, within HMPREF1058_RS12045at 219.049 kb on + strand, within HMPREF1058_RS12045at 219.052 kb on - strand, within HMPREF1058_RS12045at 219.289 kb on + strand, within HMPREF1058_RS12045at 219.293 kb on - strand, within HMPREF1058_RS12045at 219.294 kb on + strand, within HMPREF1058_RS12045at 219.563 kb on + strand, within HMPREF1058_RS12045at 219.575 kb on + strand, within HMPREF1058_RS12045at 219.576 kb on - strand, within HMPREF1058_RS12045at 219.891 kb on + strandat 219.906 kb on + strandat 219.906 kb on + strandat 219.913 kb on - strandat 219.955 kb on + strandat 219.968 kb on - strandat 219.968 kb on - strandat 220.131 kb on - strandat 220.131 kb on - strandat 220.132 kb on + strandat 220.132 kb on + strandat 220.282 kb on + strandat 220.283 kb on - strand, within HMPREF1058_RS12040at 220.283 kb on - strand, within HMPREF1058_RS12040at 220.312 kb on + strand, within HMPREF1058_RS12040at 220.339 kb on + strand, within HMPREF1058_RS12040at 220.451 kb on + strand, within HMPREF1058_RS12040at 220.451 kb on + strand, within HMPREF1058_RS12040at 220.452 kb on - strand, within HMPREF1058_RS12040at 220.452 kb on - strand, within HMPREF1058_RS12040at 220.454 kb on - strand, within HMPREF1058_RS12040at 220.458 kb on - strand, within HMPREF1058_RS12040at 220.654 kb on + strand, within HMPREF1058_RS12040at 220.654 kb on + strand, within HMPREF1058_RS12040at 220.654 kb on + strand, within HMPREF1058_RS12040at 220.888 kb on + strand, within HMPREF1058_RS12040

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse17; day7
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217,694 + HMPREF1058_RS0119610 0.89 +1.2
217,696 + HMPREF1058_RS0119610 0.89 -0.8
217,717 + -0.1
217,823 + -0.4
217,869 + +0.9
217,869 + +0.7
217,869 + +0.1
217,871 + +0.6
217,871 + +0.5
217,872 - -0.2
217,872 - +0.2
217,872 - -0.4
217,872 - -1.0
217,876 - -0.5
217,876 - +1.4
217,876 - +0.8
217,899 - -0.0
217,943 - +1.8
217,955 - -0.5
217,992 - -3.5
218,007 - +3.0
218,097 - +1.1
218,123 + +0.6
218,124 - -0.8
218,138 + +1.5
218,165 - +0.1
218,200 - -1.8
218,232 - -0.6
218,269 + -0.1
218,291 + +1.9
218,396 + +0.5
218,418 + +0.4
218,448 - +0.9
218,651 - +1.9
218,684 + +0.1
218,685 - -0.2
218,810 + +0.6
218,830 + HMPREF1058_RS12045 0.12 -1.3
218,910 + HMPREF1058_RS12045 0.18 +1.1
218,911 - HMPREF1058_RS12045 0.18 +1.1
218,911 - HMPREF1058_RS12045 0.18 -2.9
218,911 - HMPREF1058_RS12045 0.18 +1.4
218,914 + HMPREF1058_RS12045 0.18 -0.2
218,915 - HMPREF1058_RS12045 0.18 -0.3
218,915 - HMPREF1058_RS12045 0.18 +0.0
218,915 - HMPREF1058_RS12045 0.18 -0.1
218,915 - HMPREF1058_RS12045 0.18 -0.7
218,916 + HMPREF1058_RS12045 0.18 -0.2
218,917 - HMPREF1058_RS12045 0.18 +1.4
218,917 - HMPREF1058_RS12045 0.18 +0.2
218,922 - HMPREF1058_RS12045 0.19 +0.5
218,924 + HMPREF1058_RS12045 0.19 -0.7
219,049 + HMPREF1058_RS12045 0.29 +1.1
219,052 - HMPREF1058_RS12045 0.29 +0.5
219,289 + HMPREF1058_RS12045 0.48 +2.8
219,293 - HMPREF1058_RS12045 0.49 +1.1
219,294 + HMPREF1058_RS12045 0.49 +1.0
219,563 + HMPREF1058_RS12045 0.70 -0.9
219,575 + HMPREF1058_RS12045 0.71 +2.2
219,576 - HMPREF1058_RS12045 0.71 +0.7
219,891 + -0.2
219,906 + -0.1
219,906 + +0.0
219,913 - -0.3
219,955 + -1.7
219,968 - +0.0
219,968 - -0.2
220,131 - -2.9
220,131 - -3.8
220,132 + -3.4
220,132 + -3.6
220,282 + -0.7
220,283 - HMPREF1058_RS12040 0.20 -2.8
220,283 - HMPREF1058_RS12040 0.20 -2.1
220,312 + HMPREF1058_RS12040 0.22 -3.3
220,339 + HMPREF1058_RS12040 0.25 -4.0
220,451 + HMPREF1058_RS12040 0.35 -3.3
220,451 + HMPREF1058_RS12040 0.35 -3.0
220,452 - HMPREF1058_RS12040 0.35 -1.4
220,452 - HMPREF1058_RS12040 0.35 -3.1
220,454 - HMPREF1058_RS12040 0.36 -3.5
220,458 - HMPREF1058_RS12040 0.36 -2.8
220,654 + HMPREF1058_RS12040 0.54 -3.4
220,654 + HMPREF1058_RS12040 0.54 -2.0
220,654 + HMPREF1058_RS12040 0.54 -3.2
220,888 + HMPREF1058_RS12040 0.76 -3.0

Or see this region's nucleotide sequence