Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS02865

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse18; day9

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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.

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500 ntHMPREF1058_RS02870 and HMPREF1058_RS02865 are separated by 27 nucleotidesHMPREF1058_RS02865 and HMPREF1058_RS02860 are separated by 19 nucleotidesHMPREF1058_RS02860 and HMPREF1058_RS02855 are separated by 425 nucleotides HMPREF1058_RS02870: HMPREF1058_RS02870 - endonuclease/exonuclease/phosphatase family protein, at 65,946 to 66,884 _RS02870 HMPREF1058_RS02865: HMPREF1058_RS02865 - PQQ-binding-like beta-propeller repeat protein, at 66,912 to 69,368 _RS02865 HMPREF1058_RS02860: HMPREF1058_RS02860 - hypothetical protein, at 69,388 to 69,903 _RS02860 HMPREF1058_RS02855: HMPREF1058_RS02855 - DEAD/DEAH box helicase, at 70,329 to 71,633 _RS02855 Position (kb) 66 67 68 69 70Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 66.059 kb on - strand, within HMPREF1058_RS02870at 66.163 kb on - strand, within HMPREF1058_RS02870at 66.204 kb on + strand, within HMPREF1058_RS02870at 66.205 kb on - strand, within HMPREF1058_RS02870at 66.234 kb on + strand, within HMPREF1058_RS02870at 66.280 kb on + strand, within HMPREF1058_RS02870at 66.280 kb on + strand, within HMPREF1058_RS02870at 66.281 kb on - strand, within HMPREF1058_RS02870at 66.281 kb on - strand, within HMPREF1058_RS02870at 66.281 kb on - strand, within HMPREF1058_RS02870at 66.285 kb on - strand, within HMPREF1058_RS02870at 66.291 kb on - strand, within HMPREF1058_RS02870at 66.357 kb on + strand, within HMPREF1058_RS02870at 66.505 kb on + strand, within HMPREF1058_RS02870at 66.506 kb on - strand, within HMPREF1058_RS02870at 66.630 kb on - strand, within HMPREF1058_RS02870at 66.636 kb on - strand, within HMPREF1058_RS02870at 66.903 kb on + strandat 66.928 kb on + strandat 66.985 kb on + strandat 66.986 kb on - strandat 66.986 kb on - strandat 66.986 kb on - strandat 66.986 kb on - strandat 67.153 kb on - strandat 67.155 kb on - strandat 67.179 kb on - strand, within HMPREF1058_RS02865at 67.262 kb on + strand, within HMPREF1058_RS02865at 67.376 kb on + strand, within HMPREF1058_RS02865at 67.450 kb on - strand, within HMPREF1058_RS02865at 67.513 kb on - strand, within HMPREF1058_RS02865at 67.525 kb on - strand, within HMPREF1058_RS02865at 67.525 kb on - strand, within HMPREF1058_RS02865at 67.528 kb on - strand, within HMPREF1058_RS02865at 67.544 kb on + strand, within HMPREF1058_RS02865at 67.599 kb on - strand, within HMPREF1058_RS02865at 67.612 kb on + strand, within HMPREF1058_RS02865at 67.692 kb on + strand, within HMPREF1058_RS02865at 67.700 kb on + strand, within HMPREF1058_RS02865at 67.749 kb on + strand, within HMPREF1058_RS02865at 67.769 kb on - strand, within HMPREF1058_RS02865at 67.771 kb on - strand, within HMPREF1058_RS02865at 67.787 kb on + strand, within HMPREF1058_RS02865at 67.794 kb on - strand, within HMPREF1058_RS02865at 67.816 kb on - strand, within HMPREF1058_RS02865at 67.827 kb on - strand, within HMPREF1058_RS02865at 67.852 kb on + strand, within HMPREF1058_RS02865at 67.852 kb on + strand, within HMPREF1058_RS02865at 67.888 kb on + strand, within HMPREF1058_RS02865at 67.892 kb on + strand, within HMPREF1058_RS02865at 67.893 kb on - strand, within HMPREF1058_RS02865at 67.893 kb on - strand, within HMPREF1058_RS02865at 67.925 kb on + strand, within HMPREF1058_RS02865at 67.926 kb on - strand, within HMPREF1058_RS02865at 67.943 kb on + strand, within HMPREF1058_RS02865at 68.007 kb on + strand, within HMPREF1058_RS02865at 68.008 kb on - strand, within HMPREF1058_RS02865at 68.041 kb on - strand, within HMPREF1058_RS02865at 68.041 kb on - strand, within HMPREF1058_RS02865at 68.042 kb on + strand, within HMPREF1058_RS02865at 68.042 kb on + strand, within HMPREF1058_RS02865at 68.043 kb on - strand, within HMPREF1058_RS02865at 68.097 kb on - strand, within HMPREF1058_RS02865at 68.157 kb on - strand, within HMPREF1058_RS02865at 68.361 kb on + strand, within HMPREF1058_RS02865at 68.501 kb on + strand, within HMPREF1058_RS02865at 68.945 kb on + strand, within HMPREF1058_RS02865at 68.947 kb on + strand, within HMPREF1058_RS02865at 68.948 kb on - strand, within HMPREF1058_RS02865at 68.948 kb on - strand, within HMPREF1058_RS02865at 68.948 kb on - strand, within HMPREF1058_RS02865at 68.948 kb on - strand, within HMPREF1058_RS02865at 68.951 kb on - strand, within HMPREF1058_RS02865at 69.023 kb on - strand, within HMPREF1058_RS02865at 69.023 kb on - strand, within HMPREF1058_RS02865at 69.042 kb on - strand, within HMPREF1058_RS02865at 69.132 kb on + strandat 69.133 kb on - strandat 69.133 kb on - strandat 69.134 kb on + strandat 69.135 kb on - strandat 69.135 kb on - strandat 69.144 kb on + strandat 69.204 kb on + strandat 69.205 kb on - strandat 69.206 kb on + strandat 69.207 kb on - strandat 69.240 kb on - strandat 69.276 kb on - strandat 69.287 kb on + strandat 69.351 kb on + strandat 69.363 kb on - strandat 69.384 kb on + strandat 69.387 kb on + strandat 69.388 kb on - strandat 69.388 kb on - strandat 69.421 kb on + strandat 69.421 kb on + strandat 69.421 kb on + strandat 69.456 kb on + strand, within HMPREF1058_RS02860at 69.457 kb on - strand, within HMPREF1058_RS02860at 69.477 kb on - strand, within HMPREF1058_RS02860at 69.492 kb on - strand, within HMPREF1058_RS02860at 69.616 kb on - strand, within HMPREF1058_RS02860at 69.617 kb on + strand, within HMPREF1058_RS02860at 69.622 kb on - strand, within HMPREF1058_RS02860at 69.631 kb on - strand, within HMPREF1058_RS02860at 69.646 kb on + strand, within HMPREF1058_RS02860at 69.648 kb on + strand, within HMPREF1058_RS02860at 69.649 kb on - strand, within HMPREF1058_RS02860at 69.655 kb on + strand, within HMPREF1058_RS02860at 69.739 kb on + strand, within HMPREF1058_RS02860at 69.739 kb on + strand, within HMPREF1058_RS02860at 69.742 kb on - strand, within HMPREF1058_RS02860at 69.744 kb on - strand, within HMPREF1058_RS02860at 69.754 kb on + strand, within HMPREF1058_RS02860at 69.784 kb on + strand, within HMPREF1058_RS02860at 69.784 kb on + strand, within HMPREF1058_RS02860at 69.784 kb on + strand, within HMPREF1058_RS02860at 69.784 kb on + strand, within HMPREF1058_RS02860at 69.796 kb on + strand, within HMPREF1058_RS02860at 70.129 kb on - strandat 70.178 kb on + strandat 70.182 kb on + strandat 70.222 kb on + strandat 70.222 kb on + strandat 70.269 kb on - strandat 70.292 kb on + strandat 70.337 kb on + strandat 70.352 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse18; day9
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66,059 - HMPREF1058_RS02870 0.12 +0.0
66,163 - HMPREF1058_RS02870 0.23 -3.5
66,204 + HMPREF1058_RS02870 0.27 -0.1
66,205 - HMPREF1058_RS02870 0.28 -2.1
66,234 + HMPREF1058_RS02870 0.31 +0.2
66,280 + HMPREF1058_RS02870 0.36 -1.1
66,280 + HMPREF1058_RS02870 0.36 -0.2
66,281 - HMPREF1058_RS02870 0.36 -1.0
66,281 - HMPREF1058_RS02870 0.36 +0.7
66,281 - HMPREF1058_RS02870 0.36 +2.2
66,285 - HMPREF1058_RS02870 0.36 +1.1
66,291 - HMPREF1058_RS02870 0.37 +0.4
66,357 + HMPREF1058_RS02870 0.44 -0.0
66,505 + HMPREF1058_RS02870 0.60 -1.4
66,506 - HMPREF1058_RS02870 0.60 -1.5
66,630 - HMPREF1058_RS02870 0.73 -0.4
66,636 - HMPREF1058_RS02870 0.73 -0.9
66,903 + +0.1
66,928 + -1.0
66,985 + -1.0
66,986 - +0.2
66,986 - -0.1
66,986 - +0.2
66,986 - +0.4
67,153 - -0.2
67,155 - +0.9
67,179 - HMPREF1058_RS02865 0.11 +0.2
67,262 + HMPREF1058_RS02865 0.14 -0.3
67,376 + HMPREF1058_RS02865 0.19 -1.5
67,450 - HMPREF1058_RS02865 0.22 +0.8
67,513 - HMPREF1058_RS02865 0.24 -0.2
67,525 - HMPREF1058_RS02865 0.25 -2.1
67,525 - HMPREF1058_RS02865 0.25 +0.9
67,528 - HMPREF1058_RS02865 0.25 +1.7
67,544 + HMPREF1058_RS02865 0.26 +3.6
67,599 - HMPREF1058_RS02865 0.28 +2.5
67,612 + HMPREF1058_RS02865 0.28 -0.9
67,692 + HMPREF1058_RS02865 0.32 +0.9
67,700 + HMPREF1058_RS02865 0.32 -0.3
67,749 + HMPREF1058_RS02865 0.34 +0.2
67,769 - HMPREF1058_RS02865 0.35 -1.8
67,771 - HMPREF1058_RS02865 0.35 -0.4
67,787 + HMPREF1058_RS02865 0.36 -0.4
67,794 - HMPREF1058_RS02865 0.36 -2.0
67,816 - HMPREF1058_RS02865 0.37 -0.7
67,827 - HMPREF1058_RS02865 0.37 +0.7
67,852 + HMPREF1058_RS02865 0.38 +0.5
67,852 + HMPREF1058_RS02865 0.38 -3.8
67,888 + HMPREF1058_RS02865 0.40 +0.0
67,892 + HMPREF1058_RS02865 0.40 +0.4
67,893 - HMPREF1058_RS02865 0.40 -0.2
67,893 - HMPREF1058_RS02865 0.40 -0.6
67,925 + HMPREF1058_RS02865 0.41 -0.5
67,926 - HMPREF1058_RS02865 0.41 -0.8
67,943 + HMPREF1058_RS02865 0.42 -2.4
68,007 + HMPREF1058_RS02865 0.45 -1.4
68,008 - HMPREF1058_RS02865 0.45 -0.9
68,041 - HMPREF1058_RS02865 0.46 -0.1
68,041 - HMPREF1058_RS02865 0.46 +0.4
68,042 + HMPREF1058_RS02865 0.46 +0.1
68,042 + HMPREF1058_RS02865 0.46 -3.5
68,043 - HMPREF1058_RS02865 0.46 +2.2
68,097 - HMPREF1058_RS02865 0.48 -0.0
68,157 - HMPREF1058_RS02865 0.51 -0.5
68,361 + HMPREF1058_RS02865 0.59 -0.3
68,501 + HMPREF1058_RS02865 0.65 -1.7
68,945 + HMPREF1058_RS02865 0.83 -1.3
68,947 + HMPREF1058_RS02865 0.83 -0.3
68,948 - HMPREF1058_RS02865 0.83 -1.3
68,948 - HMPREF1058_RS02865 0.83 +0.0
68,948 - HMPREF1058_RS02865 0.83 +0.6
68,948 - HMPREF1058_RS02865 0.83 -0.4
68,951 - HMPREF1058_RS02865 0.83 -0.2
69,023 - HMPREF1058_RS02865 0.86 -1.1
69,023 - HMPREF1058_RS02865 0.86 -2.2
69,042 - HMPREF1058_RS02865 0.87 -0.6
69,132 + -0.7
69,133 - -4.0
69,133 - -0.7
69,134 + -0.3
69,135 - +0.3
69,135 - -0.8
69,144 + -0.6
69,204 + -0.2
69,205 - +2.5
69,206 + +1.0
69,207 - -0.1
69,240 - +1.7
69,276 - +0.8
69,287 + -0.3
69,351 + -1.2
69,363 - +0.6
69,384 + +1.4
69,387 + -1.3
69,388 - -0.8
69,388 - +0.8
69,421 + -0.8
69,421 + -2.5
69,421 + +0.2
69,456 + HMPREF1058_RS02860 0.13 -1.1
69,457 - HMPREF1058_RS02860 0.13 -3.4
69,477 - HMPREF1058_RS02860 0.17 -1.1
69,492 - HMPREF1058_RS02860 0.20 -0.4
69,616 - HMPREF1058_RS02860 0.44 -2.9
69,617 + HMPREF1058_RS02860 0.44 +0.2
69,622 - HMPREF1058_RS02860 0.45 -0.4
69,631 - HMPREF1058_RS02860 0.47 +0.2
69,646 + HMPREF1058_RS02860 0.50 -3.5
69,648 + HMPREF1058_RS02860 0.50 -0.9
69,649 - HMPREF1058_RS02860 0.51 +1.4
69,655 + HMPREF1058_RS02860 0.52 +0.8
69,739 + HMPREF1058_RS02860 0.68 +1.1
69,739 + HMPREF1058_RS02860 0.68 +0.9
69,742 - HMPREF1058_RS02860 0.69 -0.2
69,744 - HMPREF1058_RS02860 0.69 -0.2
69,754 + HMPREF1058_RS02860 0.71 +0.4
69,784 + HMPREF1058_RS02860 0.77 +0.9
69,784 + HMPREF1058_RS02860 0.77 +0.4
69,784 + HMPREF1058_RS02860 0.77 -0.6
69,784 + HMPREF1058_RS02860 0.77 -0.5
69,796 + HMPREF1058_RS02860 0.79 -0.2
70,129 - +0.1
70,178 + -0.2
70,182 + +0.7
70,222 + +0.3
70,222 + +1.9
70,269 - +0.3
70,292 + +1.3
70,337 + -0.2
70,352 + -0.7

Or see this region's nucleotide sequence