Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS04045

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4

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_RS04050 and HMPREF1058_RS04045 are separated by 19 nucleotidesHMPREF1058_RS04045 and HMPREF1058_RS04040 are separated by 10 nucleotidesHMPREF1058_RS04040 and HMPREF1058_RS04035 are separated by 129 nucleotides HMPREF1058_RS04050: HMPREF1058_RS04050 - protein BatD, at 126,023 to 127,858 _RS04050 HMPREF1058_RS04045: HMPREF1058_RS04045 - tetratricopeptide repeat protein, at 127,878 to 128,696 _RS04045 HMPREF1058_RS04040: HMPREF1058_RS04040 - phosphatase PAP2 family protein, at 128,707 to 129,414 _RS04040 HMPREF1058_RS04035: HMPREF1058_RS04035 - hypothetical protein, at 129,544 to 129,813 _RS04035 Position (kb) 127 128 129Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 126.946 kb on + strand, within HMPREF1058_RS04050at 126.963 kb on + strand, within HMPREF1058_RS04050at 127.082 kb on + strand, within HMPREF1058_RS04050at 127.229 kb on - strand, within HMPREF1058_RS04050at 127.232 kb on + strand, within HMPREF1058_RS04050at 127.232 kb on + strand, within HMPREF1058_RS04050at 127.233 kb on - strand, within HMPREF1058_RS04050at 127.234 kb on + strand, within HMPREF1058_RS04050at 127.235 kb on - strand, within HMPREF1058_RS04050at 127.256 kb on + strand, within HMPREF1058_RS04050at 127.257 kb on - strand, within HMPREF1058_RS04050at 127.418 kb on + strand, within HMPREF1058_RS04050at 127.419 kb on - strand, within HMPREF1058_RS04050at 127.419 kb on - strand, within HMPREF1058_RS04050at 127.433 kb on - strand, within HMPREF1058_RS04050at 127.598 kb on + strand, within HMPREF1058_RS04050at 127.599 kb on - strand, within HMPREF1058_RS04050at 127.792 kb on + strandat 127.847 kb on - strandat 127.849 kb on - strandat 127.929 kb on + strandat 127.929 kb on + strandat 128.070 kb on + strand, within HMPREF1058_RS04045at 128.071 kb on - strand, within HMPREF1058_RS04045at 128.078 kb on + strand, within HMPREF1058_RS04045at 128.078 kb on + strand, within HMPREF1058_RS04045at 128.133 kb on + strand, within HMPREF1058_RS04045at 128.172 kb on + strand, within HMPREF1058_RS04045at 128.172 kb on + strand, within HMPREF1058_RS04045at 128.257 kb on + strand, within HMPREF1058_RS04045at 128.337 kb on - strand, within HMPREF1058_RS04045at 128.345 kb on + strand, within HMPREF1058_RS04045at 128.354 kb on + strand, within HMPREF1058_RS04045at 128.365 kb on + strand, within HMPREF1058_RS04045at 128.446 kb on + strand, within HMPREF1058_RS04045at 128.467 kb on + strand, within HMPREF1058_RS04045at 128.498 kb on + strand, within HMPREF1058_RS04045at 128.514 kb on - strand, within HMPREF1058_RS04045at 128.517 kb on - strand, within HMPREF1058_RS04045at 128.518 kb on + strand, within HMPREF1058_RS04045at 128.519 kb on - strand, within HMPREF1058_RS04045at 128.573 kb on - strand, within HMPREF1058_RS04045at 128.573 kb on - strand, within HMPREF1058_RS04045at 128.713 kb on - strandat 128.714 kb on + strandat 128.715 kb on - strandat 128.723 kb on - strandat 128.723 kb on - strandat 128.723 kb on - strandat 128.723 kb on - strandat 128.726 kb on + strandat 128.809 kb on - strand, within HMPREF1058_RS04040at 128.836 kb on - strand, within HMPREF1058_RS04040at 128.843 kb on + strand, within HMPREF1058_RS04040at 128.846 kb on - strandat 128.848 kb on - strand, within HMPREF1058_RS04040at 128.919 kb on - strand, within HMPREF1058_RS04040at 128.988 kb on + strand, within HMPREF1058_RS04040at 128.988 kb on + strand, within HMPREF1058_RS04040at 128.992 kb on - strand, within HMPREF1058_RS04040at 128.995 kb on + strand, within HMPREF1058_RS04040at 128.995 kb on + strand, within HMPREF1058_RS04040at 128.997 kb on + strand, within HMPREF1058_RS04040at 128.998 kb on - strand, within HMPREF1058_RS04040at 129.073 kb on - strand, within HMPREF1058_RS04040at 129.167 kb on + strand, within HMPREF1058_RS04040at 129.206 kb on + strand, within HMPREF1058_RS04040at 129.206 kb on + strand, within HMPREF1058_RS04040at 129.207 kb on - strand, within HMPREF1058_RS04040at 129.221 kb on + strand, within HMPREF1058_RS04040at 129.247 kb on - strand, within HMPREF1058_RS04040at 129.298 kb on + strand, within HMPREF1058_RS04040at 129.330 kb on + strand, within HMPREF1058_RS04040at 129.345 kb on - strandat 129.362 kb on - strandat 129.373 kb on - strandat 129.399 kb on + strandat 129.433 kb on + strandat 129.443 kb on + strandat 129.444 kb on - strandat 129.555 kb on - strandat 129.555 kb on - strandat 129.555 kb on - strandat 129.631 kb on - strand, within HMPREF1058_RS04035at 129.648 kb on - strand, within HMPREF1058_RS04035at 129.648 kb on - strand, within HMPREF1058_RS04035at 129.652 kb on - strand, within HMPREF1058_RS04035

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4
remove
126,946 + HMPREF1058_RS04050 0.50 -0.8
126,963 + HMPREF1058_RS04050 0.51 -1.4
127,082 + HMPREF1058_RS04050 0.58 -3.0
127,229 - HMPREF1058_RS04050 0.66 -2.1
127,232 + HMPREF1058_RS04050 0.66 -0.8
127,232 + HMPREF1058_RS04050 0.66 -2.4
127,233 - HMPREF1058_RS04050 0.66 -2.6
127,234 + HMPREF1058_RS04050 0.66 -1.4
127,235 - HMPREF1058_RS04050 0.66 +0.2
127,256 + HMPREF1058_RS04050 0.67 -1.4
127,257 - HMPREF1058_RS04050 0.67 +0.2
127,418 + HMPREF1058_RS04050 0.76 -1.8
127,419 - HMPREF1058_RS04050 0.76 -2.1
127,419 - HMPREF1058_RS04050 0.76 -2.1
127,433 - HMPREF1058_RS04050 0.77 -2.1
127,598 + HMPREF1058_RS04050 0.86 -1.8
127,599 - HMPREF1058_RS04050 0.86 -0.8
127,792 + -4.2
127,847 - -2.1
127,849 - -1.4
127,929 + -1.8
127,929 + -1.4
128,070 + HMPREF1058_RS04045 0.23 -0.8
128,071 - HMPREF1058_RS04045 0.24 -2.1
128,078 + HMPREF1058_RS04045 0.24 -2.8
128,078 + HMPREF1058_RS04045 0.24 -1.4
128,133 + HMPREF1058_RS04045 0.31 -0.8
128,172 + HMPREF1058_RS04045 0.36 -0.8
128,172 + HMPREF1058_RS04045 0.36 +0.2
128,257 + HMPREF1058_RS04045 0.46 -2.4
128,337 - HMPREF1058_RS04045 0.56 +0.2
128,345 + HMPREF1058_RS04045 0.57 -2.6
128,354 + HMPREF1058_RS04045 0.58 -3.2
128,365 + HMPREF1058_RS04045 0.59 -1.8
128,446 + HMPREF1058_RS04045 0.69 -2.6
128,467 + HMPREF1058_RS04045 0.72 -2.8
128,498 + HMPREF1058_RS04045 0.76 -1.8
128,514 - HMPREF1058_RS04045 0.78 -3.6
128,517 - HMPREF1058_RS04045 0.78 -0.8
128,518 + HMPREF1058_RS04045 0.78 +0.2
128,519 - HMPREF1058_RS04045 0.78 -3.2
128,573 - HMPREF1058_RS04045 0.85 -0.8
128,573 - HMPREF1058_RS04045 0.85 -1.4
128,713 - +0.2
128,714 + -2.0
128,715 - -2.1
128,723 - -2.1
128,723 - -3.0
128,723 - +1.4
128,723 - +0.2
128,726 + -2.1
128,809 - HMPREF1058_RS04040 0.14 -3.6
128,836 - HMPREF1058_RS04040 0.18 -2.4
128,843 + HMPREF1058_RS04040 0.19 -3.5
128,846 - +0.2
128,848 - HMPREF1058_RS04040 0.20 -2.1
128,919 - HMPREF1058_RS04040 0.30 -3.0
128,988 + HMPREF1058_RS04040 0.40 -2.6
128,988 + HMPREF1058_RS04040 0.40 -1.4
128,992 - HMPREF1058_RS04040 0.40 -1.4
128,995 + HMPREF1058_RS04040 0.41 -1.6
128,995 + HMPREF1058_RS04040 0.41 -1.0
128,997 + HMPREF1058_RS04040 0.41 +0.2
128,998 - HMPREF1058_RS04040 0.41 +0.2
129,073 - HMPREF1058_RS04040 0.52 -0.8
129,167 + HMPREF1058_RS04040 0.65 -2.1
129,206 + HMPREF1058_RS04040 0.70 -1.0
129,206 + HMPREF1058_RS04040 0.70 -0.8
129,207 - HMPREF1058_RS04040 0.71 -1.2
129,221 + HMPREF1058_RS04040 0.73 -0.8
129,247 - HMPREF1058_RS04040 0.76 -0.4
129,298 + HMPREF1058_RS04040 0.83 -0.1
129,330 + HMPREF1058_RS04040 0.88 -1.6
129,345 - -1.5
129,362 - -1.6
129,373 - -0.6
129,399 + -0.4
129,433 + -0.5
129,443 + +1.9
129,444 - +1.8
129,555 - -1.4
129,555 - -4.2
129,555 - -0.9
129,631 - HMPREF1058_RS04035 0.32 +0.2
129,648 - HMPREF1058_RS04035 0.39 +0.9
129,648 - HMPREF1058_RS04035 0.39 -0.9
129,652 - HMPREF1058_RS04035 0.40 -1.4

Or see this region's nucleotide sequence