Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS04300

Experiment: Rhamnogalacturonan from soy bean pectic fibre 2.5 mg/ml (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_RS04305 and HMPREF1058_RS04300 are separated by 254 nucleotidesHMPREF1058_RS04300 and HMPREF1058_RS04295 are separated by 107 nucleotides HMPREF1058_RS04305: HMPREF1058_RS04305 - DEAD/DEAH box helicase, at 69,359 to 70,678 _RS04305 HMPREF1058_RS04300: HMPREF1058_RS04300 - 3-phosphoserine/phosphohydroxythreonine transaminase, at 70,933 to 72,003 _RS04300 HMPREF1058_RS04295: HMPREF1058_RS04295 - 3-phosphoglycerate dehydrogenase, at 72,111 to 73,031 _RS04295 Position (kb) 70 71 72 73Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 69.977 kb on + strand, within HMPREF1058_RS04305at 69.978 kb on - strand, within HMPREF1058_RS04305at 69.985 kb on - strand, within HMPREF1058_RS04305at 70.021 kb on + strand, within HMPREF1058_RS04305at 70.178 kb on - strand, within HMPREF1058_RS04305at 70.263 kb on + strand, within HMPREF1058_RS04305at 70.382 kb on + strand, within HMPREF1058_RS04305at 70.383 kb on - strand, within HMPREF1058_RS04305at 70.385 kb on - strand, within HMPREF1058_RS04305at 70.458 kb on + strand, within HMPREF1058_RS04305at 70.458 kb on + strand, within HMPREF1058_RS04305at 70.459 kb on - strand, within HMPREF1058_RS04305at 70.460 kb on + strand, within HMPREF1058_RS04305at 70.895 kb on - strandat 70.912 kb on + strandat 70.965 kb on + strandat 70.965 kb on + strandat 71.079 kb on - strand, within HMPREF1058_RS04300at 71.138 kb on + strand, within HMPREF1058_RS04300at 71.172 kb on + strand, within HMPREF1058_RS04300at 71.173 kb on - strand, within HMPREF1058_RS04300at 71.177 kb on + strand, within HMPREF1058_RS04300at 71.177 kb on + strand, within HMPREF1058_RS04300at 71.178 kb on - strand, within HMPREF1058_RS04300at 71.302 kb on + strand, within HMPREF1058_RS04300at 71.302 kb on + strand, within HMPREF1058_RS04300at 71.303 kb on - strand, within HMPREF1058_RS04300at 71.305 kb on - strand, within HMPREF1058_RS04300at 71.430 kb on + strand, within HMPREF1058_RS04300at 71.475 kb on + strand, within HMPREF1058_RS04300at 71.481 kb on + strandat 71.676 kb on - strand, within HMPREF1058_RS04300at 71.737 kb on + strand, within HMPREF1058_RS04300at 71.834 kb on - strand, within HMPREF1058_RS04300at 71.880 kb on + strand, within HMPREF1058_RS04300at 71.940 kb on + strandat 72.004 kb on + strandat 72.005 kb on - strandat 72.008 kb on + strandat 72.158 kb on - strandat 72.158 kb on - strandat 72.217 kb on - strand, within HMPREF1058_RS04295at 72.235 kb on + strand, within HMPREF1058_RS04295at 72.236 kb on - strand, within HMPREF1058_RS04295at 72.236 kb on - strand, within HMPREF1058_RS04295at 72.281 kb on + strand, within HMPREF1058_RS04295at 72.331 kb on + strand, within HMPREF1058_RS04295at 72.332 kb on - strand, within HMPREF1058_RS04295at 72.581 kb on + strand, within HMPREF1058_RS04295at 72.664 kb on - strandat 72.678 kb on - strand, within HMPREF1058_RS04295at 72.729 kb on + strand, within HMPREF1058_RS04295at 72.763 kb on + strand, within HMPREF1058_RS04295at 72.838 kb on + strand, within HMPREF1058_RS04295at 72.844 kb on - strand, within HMPREF1058_RS04295at 72.844 kb on - strand, within HMPREF1058_RS04295

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Rhamnogalacturonan from soy bean pectic fibre 2.5 mg/ml (C)
remove
69,977 + HMPREF1058_RS04305 0.47 +0.1
69,978 - HMPREF1058_RS04305 0.47 -0.1
69,985 - HMPREF1058_RS04305 0.47 +1.1
70,021 + HMPREF1058_RS04305 0.50 -0.6
70,178 - HMPREF1058_RS04305 0.62 +2.7
70,263 + HMPREF1058_RS04305 0.68 +0.2
70,382 + HMPREF1058_RS04305 0.78 -0.6
70,383 - HMPREF1058_RS04305 0.78 -0.1
70,385 - HMPREF1058_RS04305 0.78 +1.0
70,458 + HMPREF1058_RS04305 0.83 +0.6
70,458 + HMPREF1058_RS04305 0.83 +1.3
70,459 - HMPREF1058_RS04305 0.83 +2.3
70,460 + HMPREF1058_RS04305 0.83 +1.4
70,895 - -1.3
70,912 + -2.3
70,965 + +0.7
70,965 + -0.5
71,079 - HMPREF1058_RS04300 0.14 +2.7
71,138 + HMPREF1058_RS04300 0.19 -4.7
71,172 + HMPREF1058_RS04300 0.22 +0.0
71,173 - HMPREF1058_RS04300 0.22 -0.3
71,177 + HMPREF1058_RS04300 0.23 +0.1
71,177 + HMPREF1058_RS04300 0.23 -0.8
71,178 - HMPREF1058_RS04300 0.23 -0.5
71,302 + HMPREF1058_RS04300 0.34 -2.8
71,302 + HMPREF1058_RS04300 0.34 -1.1
71,303 - HMPREF1058_RS04300 0.35 +1.7
71,305 - HMPREF1058_RS04300 0.35 -1.9
71,430 + HMPREF1058_RS04300 0.46 -0.9
71,475 + HMPREF1058_RS04300 0.51 -0.1
71,481 + +0.1
71,676 - HMPREF1058_RS04300 0.69 +1.1
71,737 + HMPREF1058_RS04300 0.75 -4.0
71,834 - HMPREF1058_RS04300 0.84 +0.4
71,880 + HMPREF1058_RS04300 0.88 -0.4
71,940 + +0.1
72,004 + -2.8
72,005 - -1.3
72,008 + +0.7
72,158 - -0.9
72,158 - -0.3
72,217 - HMPREF1058_RS04295 0.12 +0.7
72,235 + HMPREF1058_RS04295 0.13 -3.5
72,236 - HMPREF1058_RS04295 0.14 -4.2
72,236 - HMPREF1058_RS04295 0.14 +2.7
72,281 + HMPREF1058_RS04295 0.18 -0.9
72,331 + HMPREF1058_RS04295 0.24 -1.7
72,332 - HMPREF1058_RS04295 0.24 +0.1
72,581 + HMPREF1058_RS04295 0.51 -1.8
72,664 - +0.4
72,678 - HMPREF1058_RS04295 0.62 -2.6
72,729 + HMPREF1058_RS04295 0.67 -2.3
72,763 + HMPREF1058_RS04295 0.71 -2.2
72,838 + HMPREF1058_RS04295 0.79 +2.7
72,844 - HMPREF1058_RS04295 0.80 -0.5
72,844 - HMPREF1058_RS04295 0.80 +0.7

Or see this region's nucleotide sequence