Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS08295

Experiment: Sucrose 10 mM (C)

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_RS08305 and HMPREF1058_RS08300 overlap by 4 nucleotidesHMPREF1058_RS08300 and HMPREF1058_RS08295 are separated by 1 nucleotidesHMPREF1058_RS08295 and HMPREF1058_RS08290 are separated by 220 nucleotidesHMPREF1058_RS08290 and HMPREF1058_RS08285 are separated by 22 nucleotides HMPREF1058_RS08305: HMPREF1058_RS08305 - DJ-1/PfpI family protein, at 1,195,349 to 1,195,900 _RS08305 HMPREF1058_RS08300: HMPREF1058_RS08300 - 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase, at 1,195,897 to 1,196,556 _RS08300 HMPREF1058_RS08295: HMPREF1058_RS08295 - ATP-dependent DNA helicase RecG, at 1,196,558 to 1,198,654 _RS08295 HMPREF1058_RS08290: HMPREF1058_RS08290 - nucleoside-diphosphate kinase, at 1,198,875 to 1,199,339 _RS08290 HMPREF1058_RS08285: HMPREF1058_RS08285 - peptidoglycan DD-metalloendopeptidase family protein, at 1,199,362 to 1,200,252 _RS08285 Position (kb) 1196 1197 1198 1199Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 1195.673 kb on + strand, within HMPREF1058_RS08305at 1195.707 kb on + strand, within HMPREF1058_RS08305at 1195.707 kb on + strand, within HMPREF1058_RS08305at 1195.751 kb on + strand, within HMPREF1058_RS08305at 1196.573 kb on - strandat 1196.680 kb on + strandat 1196.681 kb on - strandat 1196.708 kb on + strandat 1196.708 kb on + strandat 1196.738 kb on + strandat 1196.738 kb on + strandat 1196.738 kb on + strandat 1196.738 kb on + strandat 1196.739 kb on - strandat 1196.739 kb on - strandat 1196.739 kb on - strandat 1196.739 kb on - strandat 1196.880 kb on - strand, within HMPREF1058_RS08295at 1196.881 kb on + strand, within HMPREF1058_RS08295at 1196.897 kb on + strand, within HMPREF1058_RS08295at 1196.898 kb on - strand, within HMPREF1058_RS08295at 1197.145 kb on - strand, within HMPREF1058_RS08295at 1197.145 kb on - strand, within HMPREF1058_RS08295at 1197.242 kb on + strand, within HMPREF1058_RS08295at 1197.257 kb on - strand, within HMPREF1058_RS08295at 1197.329 kb on - strand, within HMPREF1058_RS08295at 1197.520 kb on + strand, within HMPREF1058_RS08295at 1197.520 kb on + strand, within HMPREF1058_RS08295at 1197.521 kb on - strand, within HMPREF1058_RS08295at 1197.521 kb on - strand, within HMPREF1058_RS08295at 1197.521 kb on - strand, within HMPREF1058_RS08295at 1197.646 kb on - strand, within HMPREF1058_RS08295at 1197.682 kb on + strand, within HMPREF1058_RS08295at 1197.682 kb on + strand, within HMPREF1058_RS08295at 1197.866 kb on + strand, within HMPREF1058_RS08295at 1197.866 kb on + strand, within HMPREF1058_RS08295at 1197.866 kb on + strand, within HMPREF1058_RS08295at 1197.882 kb on + strand, within HMPREF1058_RS08295at 1197.962 kb on + strand, within HMPREF1058_RS08295at 1198.067 kb on + strand, within HMPREF1058_RS08295at 1198.195 kb on + strand, within HMPREF1058_RS08295at 1198.323 kb on - strand, within HMPREF1058_RS08295at 1198.380 kb on + strand, within HMPREF1058_RS08295at 1198.381 kb on - strand, within HMPREF1058_RS08295at 1198.550 kb on - strandat 1198.555 kb on - strandat 1198.633 kb on - strandat 1198.764 kb on - strandat 1198.764 kb on - strandat 1198.871 kb on + strandat 1198.940 kb on + strand, within HMPREF1058_RS08290at 1198.940 kb on + strand, within HMPREF1058_RS08290at 1199.022 kb on + strand, within HMPREF1058_RS08290at 1199.213 kb on + strand, within HMPREF1058_RS08290at 1199.215 kb on + strand, within HMPREF1058_RS08290at 1199.215 kb on + strand, within HMPREF1058_RS08290at 1199.294 kb on + strandat 1199.324 kb on + strandat 1199.337 kb on + strand

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Sucrose 10 mM (C)
remove
1,195,673 + HMPREF1058_RS08305 0.59 -2.0
1,195,707 + HMPREF1058_RS08305 0.65 +1.1
1,195,707 + HMPREF1058_RS08305 0.65 -0.7
1,195,751 + HMPREF1058_RS08305 0.73 +1.9
1,196,573 - -1.8
1,196,680 + -1.8
1,196,681 - -0.4
1,196,708 + -2.3
1,196,708 + -0.1
1,196,738 + -1.2
1,196,738 + -2.1
1,196,738 + -1.3
1,196,738 + -0.1
1,196,739 - -2.0
1,196,739 - -1.3
1,196,739 - -1.7
1,196,739 - -2.4
1,196,880 - HMPREF1058_RS08295 0.15 -0.8
1,196,881 + HMPREF1058_RS08295 0.15 -1.7
1,196,897 + HMPREF1058_RS08295 0.16 -2.7
1,196,898 - HMPREF1058_RS08295 0.16 +0.1
1,197,145 - HMPREF1058_RS08295 0.28 -1.4
1,197,145 - HMPREF1058_RS08295 0.28 -1.7
1,197,242 + HMPREF1058_RS08295 0.33 -2.3
1,197,257 - HMPREF1058_RS08295 0.33 -1.9
1,197,329 - HMPREF1058_RS08295 0.37 -0.5
1,197,520 + HMPREF1058_RS08295 0.46 -2.9
1,197,520 + HMPREF1058_RS08295 0.46 -1.9
1,197,521 - HMPREF1058_RS08295 0.46 +0.3
1,197,521 - HMPREF1058_RS08295 0.46 -0.7
1,197,521 - HMPREF1058_RS08295 0.46 -2.4
1,197,646 - HMPREF1058_RS08295 0.52 -1.7
1,197,682 + HMPREF1058_RS08295 0.54 -1.8
1,197,682 + HMPREF1058_RS08295 0.54 -3.6
1,197,866 + HMPREF1058_RS08295 0.62 +0.1
1,197,866 + HMPREF1058_RS08295 0.62 -3.5
1,197,866 + HMPREF1058_RS08295 0.62 -0.9
1,197,882 + HMPREF1058_RS08295 0.63 -1.4
1,197,962 + HMPREF1058_RS08295 0.67 -2.1
1,198,067 + HMPREF1058_RS08295 0.72 -1.0
1,198,195 + HMPREF1058_RS08295 0.78 -2.5
1,198,323 - HMPREF1058_RS08295 0.84 -0.4
1,198,380 + HMPREF1058_RS08295 0.87 -0.9
1,198,381 - HMPREF1058_RS08295 0.87 -0.4
1,198,550 - -0.3
1,198,555 - -0.9
1,198,633 - -0.9
1,198,764 - -0.1
1,198,764 - +0.8
1,198,871 + -0.9
1,198,940 + HMPREF1058_RS08290 0.14 -0.3
1,198,940 + HMPREF1058_RS08290 0.14 +0.0
1,199,022 + HMPREF1058_RS08290 0.32 -0.3
1,199,213 + HMPREF1058_RS08290 0.73 +0.0
1,199,215 + HMPREF1058_RS08290 0.73 -0.6
1,199,215 + HMPREF1058_RS08290 0.73 +0.2
1,199,294 + -0.7
1,199,324 + -0.1
1,199,337 + -0.5

Or see this region's nucleotide sequence