Strain Fitness in Parabacteroides merdae CL09T00C40 around HMPREF1078_RS05175

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; day3

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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 ntHMPREF1078_RS05170 and HMPREF1078_RS05175 are separated by 109 nucleotidesHMPREF1078_RS05175 and HMPREF1078_RS05180 are separated by 100 nucleotidesHMPREF1078_RS05180 and HMPREF1078_RS05185 are separated by 14 nucleotides HMPREF1078_RS05170: HMPREF1078_RS05170 - bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase, at 295,270 to 297,735 _RS05170 HMPREF1078_RS05175: HMPREF1078_RS05175 - SDR family oxidoreductase, at 297,845 to 298,702 _RS05175 HMPREF1078_RS05180: HMPREF1078_RS05180 - L-threonylcarbamoyladenylate synthase, at 298,803 to 299,411 _RS05180 HMPREF1078_RS05185: HMPREF1078_RS05185 - dNTP triphosphohydrolase, at 299,426 to 300,751 _RS05185 Position (kb) 297 298 299Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 297.733 kb on + strandat 297.734 kb on - strandat 297.781 kb on + strandat 297.829 kb on + strandat 297.829 kb on + strandat 297.882 kb on + strandat 297.882 kb on + strandat 297.882 kb on + strandat 297.967 kb on + strand, within HMPREF1078_RS05175at 297.967 kb on + strand, within HMPREF1078_RS05175at 297.985 kb on + strand, within HMPREF1078_RS05175at 297.986 kb on - strand, within HMPREF1078_RS05175at 297.986 kb on - strand, within HMPREF1078_RS05175at 298.046 kb on - strand, within HMPREF1078_RS05175at 298.087 kb on - strand, within HMPREF1078_RS05175at 298.092 kb on + strand, within HMPREF1078_RS05175at 298.120 kb on - strand, within HMPREF1078_RS05175at 298.204 kb on + strand, within HMPREF1078_RS05175at 298.204 kb on + strand, within HMPREF1078_RS05175at 298.268 kb on + strand, within HMPREF1078_RS05175at 298.292 kb on + strand, within HMPREF1078_RS05175at 298.292 kb on + strand, within HMPREF1078_RS05175at 298.292 kb on + strand, within HMPREF1078_RS05175at 298.292 kb on + strand, within HMPREF1078_RS05175at 298.292 kb on + strand, within HMPREF1078_RS05175at 298.309 kb on + strand, within HMPREF1078_RS05175at 298.325 kb on - strand, within HMPREF1078_RS05175at 298.350 kb on + strand, within HMPREF1078_RS05175at 298.385 kb on + strand, within HMPREF1078_RS05175at 298.385 kb on + strand, within HMPREF1078_RS05175at 298.385 kb on + strand, within HMPREF1078_RS05175at 298.385 kb on + strand, within HMPREF1078_RS05175at 298.386 kb on - strand, within HMPREF1078_RS05175at 298.441 kb on + strand, within HMPREF1078_RS05175at 298.442 kb on - strand, within HMPREF1078_RS05175at 298.442 kb on - strand, within HMPREF1078_RS05175at 298.442 kb on - strand, within HMPREF1078_RS05175at 298.538 kb on + strand, within HMPREF1078_RS05175at 298.539 kb on - strand, within HMPREF1078_RS05175at 298.621 kb on + strandat 298.621 kb on + strandat 298.621 kb on + strandat 298.622 kb on - strandat 298.622 kb on - strandat 298.667 kb on + strandat 298.668 kb on - strandat 298.669 kb on + strandat 298.669 kb on + strandat 298.695 kb on - strandat 298.701 kb on - strandat 298.746 kb on - strandat 298.796 kb on + strandat 298.796 kb on + strandat 298.797 kb on - strandat 298.797 kb on - strandat 298.802 kb on + strandat 298.802 kb on + strandat 298.816 kb on + strandat 298.817 kb on - strandat 298.846 kb on + strandat 298.862 kb on + strandat 298.863 kb on - strandat 298.908 kb on + strand, within HMPREF1078_RS05180at 298.909 kb on - strand, within HMPREF1078_RS05180at 298.988 kb on + strand, within HMPREF1078_RS05180at 298.988 kb on + strand, within HMPREF1078_RS05180at 299.000 kb on + strand, within HMPREF1078_RS05180at 299.001 kb on - strand, within HMPREF1078_RS05180at 299.001 kb on - strand, within HMPREF1078_RS05180at 299.007 kb on + strand, within HMPREF1078_RS05180at 299.008 kb on - strand, within HMPREF1078_RS05180at 299.149 kb on + strand, within HMPREF1078_RS05180at 299.171 kb on + strand, within HMPREF1078_RS05180at 299.174 kb on + strand, within HMPREF1078_RS05180at 299.183 kb on + strand, within HMPREF1078_RS05180at 299.184 kb on - strand, within HMPREF1078_RS05180at 299.192 kb on - strand, within HMPREF1078_RS05180at 299.192 kb on - strand, within HMPREF1078_RS05180at 299.192 kb on - strand, within HMPREF1078_RS05180at 299.253 kb on + strand, within HMPREF1078_RS05180at 299.406 kb on + strandat 299.407 kb on - strandat 299.407 kb on - strandat 299.410 kb on - strandat 299.442 kb on + strandat 299.442 kb on + strandat 299.475 kb on - strandat 299.517 kb on - strandat 299.554 kb on - strandat 299.559 kb on - strand, within HMPREF1078_RS05185at 299.572 kb on - strand, within HMPREF1078_RS05185at 299.592 kb on + strand, within HMPREF1078_RS05185at 299.592 kb on + strand, within HMPREF1078_RS05185at 299.592 kb on + strand, within HMPREF1078_RS05185at 299.593 kb on - strand, within HMPREF1078_RS05185at 299.617 kb on + strand, within HMPREF1078_RS05185at 299.617 kb on + strand, within HMPREF1078_RS05185at 299.618 kb on - strand, within HMPREF1078_RS05185at 299.618 kb on - strand, within HMPREF1078_RS05185at 299.618 kb on - strand, within HMPREF1078_RS05185at 299.618 kb on - strand, within HMPREF1078_RS05185at 299.622 kb on + strand, within HMPREF1078_RS05185at 299.622 kb on + strand, within HMPREF1078_RS05185at 299.623 kb on - strand, within HMPREF1078_RS05185at 299.637 kb on + strand, within HMPREF1078_RS05185

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; day3
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297,733 + +0.8
297,734 - +0.2
297,781 + +0.5
297,829 + -2.4
297,829 + -3.0
297,882 + -0.7
297,882 + -1.9
297,882 + -0.7
297,967 + HMPREF1078_RS05175 0.14 +0.5
297,967 + HMPREF1078_RS05175 0.14 -0.7
297,985 + HMPREF1078_RS05175 0.16 -2.9
297,986 - HMPREF1078_RS05175 0.16 +0.9
297,986 - HMPREF1078_RS05175 0.16 -1.9
298,046 - HMPREF1078_RS05175 0.23 -1.3
298,087 - HMPREF1078_RS05175 0.28 -1.7
298,092 + HMPREF1078_RS05175 0.29 -2.1
298,120 - HMPREF1078_RS05175 0.32 +0.9
298,204 + HMPREF1078_RS05175 0.42 -1.7
298,204 + HMPREF1078_RS05175 0.42 -0.7
298,268 + HMPREF1078_RS05175 0.49 -1.7
298,292 + HMPREF1078_RS05175 0.52 +0.9
298,292 + HMPREF1078_RS05175 0.52 -2.1
298,292 + HMPREF1078_RS05175 0.52 +0.9
298,292 + HMPREF1078_RS05175 0.52 -0.1
298,292 + HMPREF1078_RS05175 0.52 -1.7
298,309 + HMPREF1078_RS05175 0.54 -2.4
298,325 - HMPREF1078_RS05175 0.56 -3.7
298,350 + HMPREF1078_RS05175 0.59 -1.9
298,385 + HMPREF1078_RS05175 0.63 -2.1
298,385 + HMPREF1078_RS05175 0.63 -2.4
298,385 + HMPREF1078_RS05175 0.63 -1.9
298,385 + HMPREF1078_RS05175 0.63 +0.9
298,386 - HMPREF1078_RS05175 0.63 -0.7
298,441 + HMPREF1078_RS05175 0.69 -3.4
298,442 - HMPREF1078_RS05175 0.70 -0.1
298,442 - HMPREF1078_RS05175 0.70 -2.1
298,442 - HMPREF1078_RS05175 0.70 -0.1
298,538 + HMPREF1078_RS05175 0.81 -1.1
298,539 - HMPREF1078_RS05175 0.81 -2.7
298,621 + -1.1
298,621 + -1.1
298,621 + -0.1
298,622 - -1.7
298,622 - -1.9
298,667 + -2.6
298,668 - -0.2
298,669 + +1.2
298,669 + -1.1
298,695 - +0.0
298,701 - -1.3
298,746 - -0.2
298,796 + -1.7
298,796 + -0.1
298,797 - +0.2
298,797 - -0.7
298,802 + -0.1
298,802 + +0.9
298,816 + +0.1
298,817 - -2.0
298,846 + -0.1
298,862 + +0.2
298,863 - -0.4
298,908 + HMPREF1078_RS05180 0.17 -0.2
298,909 - HMPREF1078_RS05180 0.17 -2.6
298,988 + HMPREF1078_RS05180 0.30 -1.2
298,988 + HMPREF1078_RS05180 0.30 +0.0
299,000 + HMPREF1078_RS05180 0.32 -0.4
299,001 - HMPREF1078_RS05180 0.33 +0.6
299,001 - HMPREF1078_RS05180 0.33 +0.9
299,007 + HMPREF1078_RS05180 0.33 +1.6
299,008 - HMPREF1078_RS05180 0.34 -0.9
299,149 + HMPREF1078_RS05180 0.57 -0.3
299,171 + HMPREF1078_RS05180 0.60 +0.9
299,174 + HMPREF1078_RS05180 0.61 -0.1
299,183 + HMPREF1078_RS05180 0.62 +3.1
299,184 - HMPREF1078_RS05180 0.63 +0.8
299,192 - HMPREF1078_RS05180 0.64 -0.3
299,192 - HMPREF1078_RS05180 0.64 -0.7
299,192 - HMPREF1078_RS05180 0.64 -0.5
299,253 + HMPREF1078_RS05180 0.74 +1.1
299,406 + +2.0
299,407 - -3.4
299,407 - -2.4
299,410 - -1.1
299,442 + +0.1
299,442 + -0.2
299,475 - -0.7
299,517 - -1.7
299,554 - +0.7
299,559 - HMPREF1078_RS05185 0.10 +2.5
299,572 - HMPREF1078_RS05185 0.11 -1.2
299,592 + HMPREF1078_RS05185 0.13 -4.2
299,592 + HMPREF1078_RS05185 0.13 +0.1
299,592 + HMPREF1078_RS05185 0.13 -1.3
299,593 - HMPREF1078_RS05185 0.13 +1.0
299,617 + HMPREF1078_RS05185 0.14 -1.2
299,617 + HMPREF1078_RS05185 0.14 +0.1
299,618 - HMPREF1078_RS05185 0.14 -0.2
299,618 - HMPREF1078_RS05185 0.14 -0.9
299,618 - HMPREF1078_RS05185 0.14 -0.8
299,618 - HMPREF1078_RS05185 0.14 +0.5
299,622 + HMPREF1078_RS05185 0.15 +1.7
299,622 + HMPREF1078_RS05185 0.15 +0.9
299,623 - HMPREF1078_RS05185 0.15 -0.2
299,637 + HMPREF1078_RS05185 0.16 +0.8

Or see this region's nucleotide sequence