Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS02335

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse14; day3

Add experiment(s):

Zoom: Pan:

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.

download SVG
500 ntHMPREF1058_RS02340 and HMPREF1058_RS21695 are separated by 229 nucleotidesHMPREF1058_RS21695 and HMPREF1058_RS02335 are separated by 365 nucleotidesHMPREF1058_RS02335 and HMPREF1058_RS0120020 are separated by 312 nucleotidesHMPREF1058_RS0120020 and HMPREF1058_RS02330 overlap by 35 nucleotides HMPREF1058_RS02340: HMPREF1058_RS02340 - RNA degradosome polyphosphate kinase, at 221,953 to 224,007 _RS02340 HMPREF1058_RS21695: HMPREF1058_RS21695 - hypothetical protein, at 224,237 to 224,392 _RS21695 HMPREF1058_RS02335: HMPREF1058_RS02335 - hypothetical protein, at 224,758 to 225,186 _RS02335 HMPREF1058_RS0120020: HMPREF1058_RS0120020 - outer membrane beta-barrel protein, at 225,499 to 226,122 _RS0120020 HMPREF1058_RS02330: HMPREF1058_RS02330 - peptidase C39, at 226,088 to 226,669 _RS02330 Position (kb) 224 225 226Strain fitness (log2 ratio) -2 -1 0 1 2at 223.860 kb on - strandat 223.863 kb on + strandat 223.863 kb on + strandat 223.863 kb on + strandat 223.864 kb on - strandat 223.881 kb on - strandat 223.970 kb on - strandat 223.970 kb on - strandat 224.024 kb on + strandat 224.111 kb on + strandat 224.217 kb on - strandat 224.217 kb on - strandat 224.260 kb on - strand, within HMPREF1058_RS21695at 224.260 kb on - strand, within HMPREF1058_RS21695at 224.287 kb on + strand, within HMPREF1058_RS21695at 224.326 kb on - strand, within HMPREF1058_RS21695at 224.513 kb on - strandat 224.772 kb on + strandat 224.962 kb on + strand, within HMPREF1058_RS02335at 224.963 kb on - strand, within HMPREF1058_RS02335at 225.110 kb on + strand, within HMPREF1058_RS02335at 225.159 kb on - strandat 225.162 kb on + strandat 225.162 kb on + strandat 225.162 kb on + strandat 225.163 kb on - strandat 225.186 kb on + strandat 225.205 kb on + strandat 225.206 kb on - strandat 225.249 kb on + strandat 225.294 kb on - strandat 225.303 kb on - strandat 225.303 kb on - strandat 225.312 kb on + strandat 225.314 kb on - strandat 225.316 kb on - strandat 225.396 kb on - strandat 225.399 kb on + strandat 225.432 kb on + strandat 225.449 kb on - strandat 225.496 kb on - strandat 225.498 kb on - strandat 225.530 kb on + strandat 225.531 kb on - strandat 225.537 kb on + strandat 225.538 kb on - strandat 225.540 kb on + strandat 225.564 kb on + strand, within HMPREF1058_RS0120020at 225.593 kb on + strand, within HMPREF1058_RS0120020at 225.594 kb on - strand, within HMPREF1058_RS0120020at 225.642 kb on + strand, within HMPREF1058_RS0120020at 225.662 kb on + strand, within HMPREF1058_RS0120020at 225.686 kb on + strand, within HMPREF1058_RS0120020at 225.686 kb on + strand, within HMPREF1058_RS0120020at 225.687 kb on - strand, within HMPREF1058_RS0120020at 225.692 kb on - strand, within HMPREF1058_RS0120020at 225.704 kb on - strand, within HMPREF1058_RS0120020at 225.728 kb on + strand, within HMPREF1058_RS0120020at 225.728 kb on + strand, within HMPREF1058_RS0120020at 225.729 kb on - strand, within HMPREF1058_RS0120020at 225.729 kb on - strand, within HMPREF1058_RS0120020at 225.729 kb on - strand, within HMPREF1058_RS0120020at 225.747 kb on + strand, within HMPREF1058_RS0120020at 225.752 kb on - strand, within HMPREF1058_RS0120020at 225.752 kb on - strand, within HMPREF1058_RS0120020at 225.796 kb on - strand, within HMPREF1058_RS0120020at 225.798 kb on - strand, within HMPREF1058_RS0120020at 225.815 kb on - strand, within HMPREF1058_RS0120020at 225.817 kb on - strand, within HMPREF1058_RS0120020at 225.817 kb on - strand, within HMPREF1058_RS0120020at 225.824 kb on + strand, within HMPREF1058_RS0120020at 225.827 kb on - strand, within HMPREF1058_RS0120020at 225.827 kb on - strand, within HMPREF1058_RS0120020at 225.915 kb on + strand, within HMPREF1058_RS0120020at 225.918 kb on + strand, within HMPREF1058_RS0120020at 225.938 kb on - strand, within HMPREF1058_RS0120020at 225.943 kb on - strand, within HMPREF1058_RS0120020at 225.965 kb on + strand, within HMPREF1058_RS0120020at 225.973 kb on - strand, within HMPREF1058_RS0120020at 226.010 kb on + strand, within HMPREF1058_RS0120020at 226.010 kb on + strand, within HMPREF1058_RS0120020at 226.010 kb on + strand, within HMPREF1058_RS0120020at 226.011 kb on - strand, within HMPREF1058_RS0120020at 226.081 kb on - strandat 226.144 kb on + strandat 226.145 kb on - strandat 226.145 kb on - strandat 226.147 kb on - strand, within HMPREF1058_RS02330at 226.147 kb on - strand, within HMPREF1058_RS02330

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse14; day3
remove
223,860 - +0.4
223,863 + +0.4
223,863 + -0.7
223,863 + -1.4
223,864 - -0.4
223,881 - -1.6
223,970 - -0.2
223,970 - -1.0
224,024 + +1.0
224,111 + +0.0
224,217 - +0.0
224,217 - -0.0
224,260 - HMPREF1058_RS21695 0.15 +1.8
224,260 - HMPREF1058_RS21695 0.15 +1.3
224,287 + HMPREF1058_RS21695 0.32 -0.0
224,326 - HMPREF1058_RS21695 0.57 -0.7
224,513 - -0.4
224,772 + +0.4
224,962 + HMPREF1058_RS02335 0.48 -0.4
224,963 - HMPREF1058_RS02335 0.48 +1.8
225,110 + HMPREF1058_RS02335 0.82 +0.6
225,159 - -1.2
225,162 + +0.5
225,162 + +1.0
225,162 + +0.6
225,163 - +0.2
225,186 + -0.1
225,205 + -0.5
225,206 - +0.5
225,249 + -0.4
225,294 - +0.0
225,303 - -0.7
225,303 - +0.1
225,312 + -0.2
225,314 - -0.2
225,316 - -0.5
225,396 - +0.6
225,399 + -0.0
225,432 + -1.2
225,449 - +0.4
225,496 - -0.3
225,498 - +0.2
225,530 + +0.3
225,531 - +1.4
225,537 + +0.4
225,538 - -1.0
225,540 + +0.3
225,564 + HMPREF1058_RS0120020 0.10 -2.6
225,593 + HMPREF1058_RS0120020 0.15 -0.7
225,594 - HMPREF1058_RS0120020 0.15 -0.2
225,642 + HMPREF1058_RS0120020 0.23 -0.7
225,662 + HMPREF1058_RS0120020 0.26 +0.1
225,686 + HMPREF1058_RS0120020 0.30 -1.3
225,686 + HMPREF1058_RS0120020 0.30 +0.5
225,687 - HMPREF1058_RS0120020 0.30 -0.4
225,692 - HMPREF1058_RS0120020 0.31 +1.0
225,704 - HMPREF1058_RS0120020 0.33 +0.2
225,728 + HMPREF1058_RS0120020 0.37 -1.0
225,728 + HMPREF1058_RS0120020 0.37 +0.6
225,729 - HMPREF1058_RS0120020 0.37 +0.3
225,729 - HMPREF1058_RS0120020 0.37 +1.4
225,729 - HMPREF1058_RS0120020 0.37 -0.1
225,747 + HMPREF1058_RS0120020 0.40 -0.4
225,752 - HMPREF1058_RS0120020 0.41 +0.9
225,752 - HMPREF1058_RS0120020 0.41 +0.4
225,796 - HMPREF1058_RS0120020 0.48 -0.2
225,798 - HMPREF1058_RS0120020 0.48 +0.3
225,815 - HMPREF1058_RS0120020 0.51 +0.9
225,817 - HMPREF1058_RS0120020 0.51 +0.0
225,817 - HMPREF1058_RS0120020 0.51 +0.1
225,824 + HMPREF1058_RS0120020 0.52 -0.2
225,827 - HMPREF1058_RS0120020 0.53 -1.6
225,827 - HMPREF1058_RS0120020 0.53 -0.8
225,915 + HMPREF1058_RS0120020 0.67 -2.1
225,918 + HMPREF1058_RS0120020 0.67 +0.3
225,938 - HMPREF1058_RS0120020 0.70 -0.6
225,943 - HMPREF1058_RS0120020 0.71 +0.1
225,965 + HMPREF1058_RS0120020 0.75 -0.8
225,973 - HMPREF1058_RS0120020 0.76 -1.9
226,010 + HMPREF1058_RS0120020 0.82 +0.8
226,010 + HMPREF1058_RS0120020 0.82 +0.1
226,010 + HMPREF1058_RS0120020 0.82 +0.7
226,011 - HMPREF1058_RS0120020 0.82 -0.4
226,081 - +0.4
226,144 + -0.0
226,145 - +0.4
226,145 - -0.8
226,147 - HMPREF1058_RS02330 0.10 -0.3
226,147 - HMPREF1058_RS02330 0.10 -0.0

Or see this region's nucleotide sequence