Strain Fitness in Phocaeicola dorei CL03T12C01 around ABI39_RS04545

Experiment: Xylan from Beechwood; autoclaved 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 ntABI39_RS04540 and ABI39_RS04545 are separated by 114 nucleotidesABI39_RS04545 and ABI39_RS04550 overlap by 4 nucleotidesABI39_RS04550 and ABI39_RS04555 are separated by 13 nucleotides ABI39_RS04540: ABI39_RS04540 - RagB/SusD family nutrient uptake outer membrane protein, at 1,280,827 to 1,282,344 _RS04540 ABI39_RS04545: ABI39_RS04545 - LysO family transporter, at 1,282,459 to 1,282,740 _RS04545 ABI39_RS04550: ABI39_RS04550 - lysine exporter LysO family protein, at 1,282,737 to 1,283,339 _RS04550 ABI39_RS04555: ABI39_RS04555 - DUF4981 domain-containing protein, at 1,283,353 to 1,286,529 _RS04555 Position (kb) 1282 1283Strain fitness (log2 ratio) -2 -1 0 1at 1281.465 kb on - strand, within ABI39_RS04540at 1281.569 kb on + strand, within ABI39_RS04540at 1281.570 kb on - strand, within ABI39_RS04540at 1281.570 kb on - strand, within ABI39_RS04540at 1281.596 kb on - strand, within ABI39_RS04540at 1281.621 kb on + strand, within ABI39_RS04540at 1281.621 kb on + strand, within ABI39_RS04540at 1281.622 kb on - strand, within ABI39_RS04540at 1281.639 kb on + strand, within ABI39_RS04540at 1281.817 kb on - strand, within ABI39_RS04540at 1281.838 kb on - strand, within ABI39_RS04540at 1281.838 kb on - strand, within ABI39_RS04540at 1281.841 kb on + strand, within ABI39_RS04540at 1281.841 kb on + strand, within ABI39_RS04540at 1281.841 kb on + strand, within ABI39_RS04540at 1281.842 kb on - strand, within ABI39_RS04540at 1281.851 kb on + strand, within ABI39_RS04540at 1281.871 kb on + strand, within ABI39_RS04540at 1281.871 kb on + strand, within ABI39_RS04540at 1281.872 kb on - strand, within ABI39_RS04540at 1281.896 kb on - strand, within ABI39_RS04540at 1281.908 kb on - strand, within ABI39_RS04540at 1281.909 kb on + strand, within ABI39_RS04540at 1282.028 kb on + strand, within ABI39_RS04540at 1282.080 kb on + strand, within ABI39_RS04540at 1282.100 kb on + strand, within ABI39_RS04540at 1282.100 kb on + strand, within ABI39_RS04540at 1282.368 kb on + strandat 1282.369 kb on - strandat 1282.369 kb on - strandat 1282.586 kb on + strand, within ABI39_RS04545at 1282.593 kb on - strand, within ABI39_RS04545at 1282.703 kb on - strand, within ABI39_RS04545at 1282.707 kb on - strand, within ABI39_RS04545at 1282.792 kb on + strandat 1282.793 kb on - strandat 1282.867 kb on + strand, within ABI39_RS04550at 1282.954 kb on + strand, within ABI39_RS04550at 1283.022 kb on - strand, within ABI39_RS04550at 1283.079 kb on + strand, within ABI39_RS04550at 1283.079 kb on + strand, within ABI39_RS04550at 1283.161 kb on + strand, within ABI39_RS04550at 1283.164 kb on + strand, within ABI39_RS04550at 1283.190 kb on - strand, within ABI39_RS04550at 1283.219 kb on + strand, within ABI39_RS04550at 1283.291 kb on - strandat 1283.338 kb on - strandat 1283.368 kb on - strandat 1283.488 kb on - strandat 1283.672 kb on + strand, within ABI39_RS04555at 1283.672 kb on + strand, within ABI39_RS04555at 1283.719 kb on + strand, within ABI39_RS04555at 1283.720 kb on - strand, within ABI39_RS04555at 1283.720 kb on - strand, within ABI39_RS04555at 1283.729 kb on + strand, within ABI39_RS04555at 1283.730 kb on - strand, within ABI39_RS04555

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Xylan from Beechwood; autoclaved 2.5 mg/ml (C)
remove
1,281,465 - ABI39_RS04540 0.42 -1.2
1,281,569 + ABI39_RS04540 0.49 +0.7
1,281,570 - ABI39_RS04540 0.49 +0.5
1,281,570 - ABI39_RS04540 0.49 +0.1
1,281,596 - ABI39_RS04540 0.51 +0.7
1,281,621 + ABI39_RS04540 0.52 +1.0
1,281,621 + ABI39_RS04540 0.52 +0.8
1,281,622 - ABI39_RS04540 0.52 -0.5
1,281,639 + ABI39_RS04540 0.53 -0.6
1,281,817 - ABI39_RS04540 0.65 +1.7
1,281,838 - ABI39_RS04540 0.67 +0.5
1,281,838 - ABI39_RS04540 0.67 -0.1
1,281,841 + ABI39_RS04540 0.67 +0.1
1,281,841 + ABI39_RS04540 0.67 -0.1
1,281,841 + ABI39_RS04540 0.67 -0.5
1,281,842 - ABI39_RS04540 0.67 -0.5
1,281,851 + ABI39_RS04540 0.67 +0.1
1,281,871 + ABI39_RS04540 0.69 -1.2
1,281,871 + ABI39_RS04540 0.69 +1.6
1,281,872 - ABI39_RS04540 0.69 -0.1
1,281,896 - ABI39_RS04540 0.70 +1.5
1,281,908 - ABI39_RS04540 0.71 +0.2
1,281,909 + ABI39_RS04540 0.71 +1.6
1,282,028 + ABI39_RS04540 0.79 -0.0
1,282,080 + ABI39_RS04540 0.83 +0.4
1,282,100 + ABI39_RS04540 0.84 -1.1
1,282,100 + ABI39_RS04540 0.84 -1.5
1,282,368 + -1.7
1,282,369 - -0.5
1,282,369 - -1.0
1,282,586 + ABI39_RS04545 0.45 +1.6
1,282,593 - ABI39_RS04545 0.48 -0.0
1,282,703 - ABI39_RS04545 0.87 -0.8
1,282,707 - ABI39_RS04545 0.88 +0.3
1,282,792 + +0.1
1,282,793 - +0.6
1,282,867 + ABI39_RS04550 0.22 +0.0
1,282,954 + ABI39_RS04550 0.36 -1.9
1,283,022 - ABI39_RS04550 0.47 -1.4
1,283,079 + ABI39_RS04550 0.57 +0.7
1,283,079 + ABI39_RS04550 0.57 -0.2
1,283,161 + ABI39_RS04550 0.70 +0.8
1,283,164 + ABI39_RS04550 0.71 +0.7
1,283,190 - ABI39_RS04550 0.75 +0.2
1,283,219 + ABI39_RS04550 0.80 -1.2
1,283,291 - -1.0
1,283,338 - +0.9
1,283,368 - -0.8
1,283,488 - +0.3
1,283,672 + ABI39_RS04555 0.10 -2.5
1,283,672 + ABI39_RS04555 0.10 +0.2
1,283,719 + ABI39_RS04555 0.12 -0.0
1,283,720 - ABI39_RS04555 0.12 -0.9
1,283,720 - ABI39_RS04555 0.12 +0.2
1,283,729 + ABI39_RS04555 0.12 +0.0
1,283,730 - ABI39_RS04555 0.12 -0.1

Or see this region's nucleotide sequence