Strain Fitness in Parabacteroides merdae CL09T00C40 around HMPREF1078_RS17050

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; 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_RS17045 and HMPREF1078_RS17050 are separated by 97 nucleotidesHMPREF1078_RS17050 and HMPREF1078_RS17055 are separated by 186 nucleotides HMPREF1078_RS17045: HMPREF1078_RS17045 - ATP-dependent Clp protease ATP-binding subunit ClpX, at 118,352 to 119,581 _RS17045 HMPREF1078_RS17050: HMPREF1078_RS17050 - ATP-dependent Clp endopeptidase proteolytic subunit ClpP, at 119,679 to 120,344 _RS17050 HMPREF1078_RS17055: HMPREF1078_RS17055 - trigger factor, at 120,531 to 121,886 _RS17055 Position (kb) 119 120 121Strain fitness (log2 ratio) -6 -5 -4 -3 -2 -1 0 1 2 3at 118.679 kb on - strand, within HMPREF1078_RS17045at 118.736 kb on - strand, within HMPREF1078_RS17045at 118.736 kb on - strand, within HMPREF1078_RS17045at 118.740 kb on + strand, within HMPREF1078_RS17045at 118.799 kb on + strand, within HMPREF1078_RS17045at 118.800 kb on - strand, within HMPREF1078_RS17045at 118.808 kb on - strand, within HMPREF1078_RS17045at 118.860 kb on - strand, within HMPREF1078_RS17045at 118.860 kb on - strand, within HMPREF1078_RS17045at 118.860 kb on - strand, within HMPREF1078_RS17045at 118.860 kb on - strand, within HMPREF1078_RS17045at 118.992 kb on - strand, within HMPREF1078_RS17045at 119.036 kb on - strand, within HMPREF1078_RS17045at 119.036 kb on - strand, within HMPREF1078_RS17045at 119.036 kb on - strand, within HMPREF1078_RS17045at 119.036 kb on - strand, within HMPREF1078_RS17045at 119.036 kb on - strand, within HMPREF1078_RS17045at 119.036 kb on - strand, within HMPREF1078_RS17045at 119.036 kb on - strand, within HMPREF1078_RS17045at 119.040 kb on - strand, within HMPREF1078_RS17045at 119.040 kb on - strand, within HMPREF1078_RS17045at 119.051 kb on - strand, within HMPREF1078_RS17045at 119.055 kb on - strand, within HMPREF1078_RS17045at 119.059 kb on + strand, within HMPREF1078_RS17045at 119.124 kb on - strand, within HMPREF1078_RS17045at 119.124 kb on - strand, within HMPREF1078_RS17045at 119.124 kb on - strand, within HMPREF1078_RS17045at 119.124 kb on - strand, within HMPREF1078_RS17045at 119.136 kb on - strand, within HMPREF1078_RS17045at 119.136 kb on - strand, within HMPREF1078_RS17045at 119.168 kb on + strand, within HMPREF1078_RS17045at 119.169 kb on - strand, within HMPREF1078_RS17045at 119.216 kb on + strand, within HMPREF1078_RS17045at 119.217 kb on - strand, within HMPREF1078_RS17045at 119.225 kb on - strand, within HMPREF1078_RS17045at 119.225 kb on - strand, within HMPREF1078_RS17045at 119.225 kb on - strand, within HMPREF1078_RS17045at 119.249 kb on - strand, within HMPREF1078_RS17045at 119.249 kb on - strand, within HMPREF1078_RS17045at 119.249 kb on - strand, within HMPREF1078_RS17045at 119.251 kb on + strand, within HMPREF1078_RS17045at 119.252 kb on - strand, within HMPREF1078_RS17045at 119.252 kb on - strand, within HMPREF1078_RS17045at 119.252 kb on - strand, within HMPREF1078_RS17045at 119.252 kb on - strand, within HMPREF1078_RS17045at 119.289 kb on - strand, within HMPREF1078_RS17045at 119.320 kb on - strand, within HMPREF1078_RS17045at 119.320 kb on - strand, within HMPREF1078_RS17045at 119.320 kb on - strand, within HMPREF1078_RS17045at 119.320 kb on - strand, within HMPREF1078_RS17045at 119.320 kb on - strand, within HMPREF1078_RS17045at 119.320 kb on - strand, within HMPREF1078_RS17045at 119.338 kb on - strand, within HMPREF1078_RS17045at 119.345 kb on - strand, within HMPREF1078_RS17045at 119.361 kb on - strand, within HMPREF1078_RS17045at 119.367 kb on + strand, within HMPREF1078_RS17045at 119.368 kb on - strand, within HMPREF1078_RS17045at 119.368 kb on - strand, within HMPREF1078_RS17045at 119.387 kb on - strand, within HMPREF1078_RS17045at 119.387 kb on - strand, within HMPREF1078_RS17045at 119.459 kb on + strandat 119.524 kb on + strandat 119.524 kb on + strandat 119.524 kb on + strandat 119.525 kb on - strandat 119.525 kb on - strandat 119.525 kb on - strandat 119.527 kb on + strandat 119.557 kb on + strandat 119.558 kb on - strandat 119.564 kb on - strandat 119.607 kb on - strandat 119.674 kb on + strandat 119.675 kb on - strandat 119.680 kb on + strandat 119.680 kb on + strandat 119.681 kb on - strandat 119.688 kb on - strandat 119.712 kb on - strandat 119.747 kb on - strand, within HMPREF1078_RS17050at 119.803 kb on - strand, within HMPREF1078_RS17050at 119.803 kb on - strand, within HMPREF1078_RS17050at 119.928 kb on - strand, within HMPREF1078_RS17050at 119.928 kb on - strand, within HMPREF1078_RS17050at 119.928 kb on - strand, within HMPREF1078_RS17050at 119.928 kb on - strand, within HMPREF1078_RS17050at 119.994 kb on - strand, within HMPREF1078_RS17050at 120.036 kb on - strand, within HMPREF1078_RS17050at 120.116 kb on - strand, within HMPREF1078_RS17050at 120.169 kb on - strand, within HMPREF1078_RS17050at 120.181 kb on - strand, within HMPREF1078_RS17050at 120.256 kb on - strand, within HMPREF1078_RS17050at 120.256 kb on - strand, within HMPREF1078_RS17050at 120.260 kb on - strand, within HMPREF1078_RS17050at 120.260 kb on - strand, within HMPREF1078_RS17050at 120.260 kb on - strand, within HMPREF1078_RS17050at 120.271 kb on - strand, within HMPREF1078_RS17050at 120.273 kb on - strand, within HMPREF1078_RS17050at 120.279 kb on - strandat 120.279 kb on - strandat 120.279 kb on - strandat 120.281 kb on - strandat 120.350 kb on - strandat 120.350 kb on - strandat 120.350 kb on - strandat 120.352 kb on - strandat 120.358 kb on - strandat 120.358 kb on - strandat 120.400 kb on - strandat 120.400 kb on - strandat 120.400 kb on - strandat 120.400 kb on - strandat 120.400 kb on - strandat 120.404 kb on - strandat 120.423 kb on - strandat 120.427 kb on - strandat 120.448 kb on + strandat 120.467 kb on + strandat 120.467 kb on + strandat 120.512 kb on - strandat 120.533 kb on - strandat 120.533 kb on - strandat 120.641 kb on + strandat 120.642 kb on - strandat 120.678 kb on - strand, within HMPREF1078_RS17055at 120.682 kb on + strand, within HMPREF1078_RS17055at 120.682 kb on + strand, within HMPREF1078_RS17055at 120.682 kb on + strand, within HMPREF1078_RS17055at 120.682 kb on + strand, within HMPREF1078_RS17055at 120.682 kb on + strand, within HMPREF1078_RS17055at 120.683 kb on - strand, within HMPREF1078_RS17055at 120.683 kb on - strand, within HMPREF1078_RS17055at 120.687 kb on - strand, within HMPREF1078_RS17055at 120.694 kb on - strand, within HMPREF1078_RS17055at 120.694 kb on - strand, within HMPREF1078_RS17055at 120.721 kb on + strand, within HMPREF1078_RS17055at 120.722 kb on - strand, within HMPREF1078_RS17055at 120.740 kb on + strand, within HMPREF1078_RS17055at 120.740 kb on + strand, within HMPREF1078_RS17055at 120.740 kb on + strand, within HMPREF1078_RS17055at 120.740 kb on + strand, within HMPREF1078_RS17055at 120.740 kb on + strand, within HMPREF1078_RS17055at 120.741 kb on - strand, within HMPREF1078_RS17055at 120.744 kb on + strand, within HMPREF1078_RS17055at 120.744 kb on + strand, within HMPREF1078_RS17055at 120.745 kb on - strand, within HMPREF1078_RS17055at 120.745 kb on - strand, within HMPREF1078_RS17055at 120.745 kb on - strand, within HMPREF1078_RS17055at 120.745 kb on - strand, within HMPREF1078_RS17055at 120.826 kb on + strand, within HMPREF1078_RS17055at 120.840 kb on + strand, within HMPREF1078_RS17055at 120.879 kb on - strand, within HMPREF1078_RS17055at 121.142 kb on + strand, within HMPREF1078_RS17055at 121.143 kb on - strand, within HMPREF1078_RS17055at 121.143 kb on - strand, within HMPREF1078_RS17055at 121.157 kb on + strand, within HMPREF1078_RS17055at 121.176 kb on - strand, within HMPREF1078_RS17055at 121.176 kb on - strand, within HMPREF1078_RS17055at 121.219 kb on + strand, within HMPREF1078_RS17055at 121.227 kb on - strand, within HMPREF1078_RS17055at 121.240 kb on - strand, within HMPREF1078_RS17055at 121.275 kb on - strand, within HMPREF1078_RS17055at 121.296 kb on + strand, within HMPREF1078_RS17055at 121.297 kb on - strand, within HMPREF1078_RS17055at 121.300 kb on + strand, within HMPREF1078_RS17055at 121.300 kb on + strand, within HMPREF1078_RS17055at 121.301 kb on - strand, within HMPREF1078_RS17055at 121.301 kb on - strand, within HMPREF1078_RS17055

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day3
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118,679 - HMPREF1078_RS17045 0.27 -0.7
118,736 - HMPREF1078_RS17045 0.31 -3.2
118,736 - HMPREF1078_RS17045 0.31 -3.3
118,740 + HMPREF1078_RS17045 0.32 -0.9
118,799 + HMPREF1078_RS17045 0.36 +0.7
118,800 - HMPREF1078_RS17045 0.36 -1.3
118,808 - HMPREF1078_RS17045 0.37 -2.2
118,860 - HMPREF1078_RS17045 0.41 -3.4
118,860 - HMPREF1078_RS17045 0.41 -0.7
118,860 - HMPREF1078_RS17045 0.41 -0.3
118,860 - HMPREF1078_RS17045 0.41 +0.0
118,992 - HMPREF1078_RS17045 0.52 -2.6
119,036 - HMPREF1078_RS17045 0.56 -2.5
119,036 - HMPREF1078_RS17045 0.56 +0.4
119,036 - HMPREF1078_RS17045 0.56 -0.4
119,036 - HMPREF1078_RS17045 0.56 +1.2
119,036 - HMPREF1078_RS17045 0.56 +2.1
119,036 - HMPREF1078_RS17045 0.56 -0.9
119,036 - HMPREF1078_RS17045 0.56 -1.8
119,040 - HMPREF1078_RS17045 0.56 -4.1
119,040 - HMPREF1078_RS17045 0.56 -1.8
119,051 - HMPREF1078_RS17045 0.57 +1.2
119,055 - HMPREF1078_RS17045 0.57 -0.4
119,059 + HMPREF1078_RS17045 0.57 -1.2
119,124 - HMPREF1078_RS17045 0.63 -0.1
119,124 - HMPREF1078_RS17045 0.63 +1.6
119,124 - HMPREF1078_RS17045 0.63 -4.5
119,124 - HMPREF1078_RS17045 0.63 -0.7
119,136 - HMPREF1078_RS17045 0.64 -2.3
119,136 - HMPREF1078_RS17045 0.64 +1.4
119,168 + HMPREF1078_RS17045 0.66 -0.7
119,169 - HMPREF1078_RS17045 0.66 -2.1
119,216 + HMPREF1078_RS17045 0.70 -0.5
119,217 - HMPREF1078_RS17045 0.70 -2.2
119,225 - HMPREF1078_RS17045 0.71 -0.8
119,225 - HMPREF1078_RS17045 0.71 -1.8
119,225 - HMPREF1078_RS17045 0.71 -0.2
119,249 - HMPREF1078_RS17045 0.73 -0.3
119,249 - HMPREF1078_RS17045 0.73 +0.4
119,249 - HMPREF1078_RS17045 0.73 -1.0
119,251 + HMPREF1078_RS17045 0.73 +0.3
119,252 - HMPREF1078_RS17045 0.73 -2.0
119,252 - HMPREF1078_RS17045 0.73 -1.4
119,252 - HMPREF1078_RS17045 0.73 -0.5
119,252 - HMPREF1078_RS17045 0.73 -0.2
119,289 - HMPREF1078_RS17045 0.76 -4.3
119,320 - HMPREF1078_RS17045 0.79 -0.3
119,320 - HMPREF1078_RS17045 0.79 -0.1
119,320 - HMPREF1078_RS17045 0.79 -1.7
119,320 - HMPREF1078_RS17045 0.79 -0.7
119,320 - HMPREF1078_RS17045 0.79 +1.9
119,320 - HMPREF1078_RS17045 0.79 -0.2
119,338 - HMPREF1078_RS17045 0.80 -1.9
119,345 - HMPREF1078_RS17045 0.81 -0.1
119,361 - HMPREF1078_RS17045 0.82 -0.2
119,367 + HMPREF1078_RS17045 0.83 -0.9
119,368 - HMPREF1078_RS17045 0.83 -0.7
119,368 - HMPREF1078_RS17045 0.83 -1.0
119,387 - HMPREF1078_RS17045 0.84 -1.1
119,387 - HMPREF1078_RS17045 0.84 -0.5
119,459 + -0.7
119,524 + -1.6
119,524 + +0.7
119,524 + +0.3
119,525 - -3.6
119,525 - -0.3
119,525 - -3.0
119,527 + -0.0
119,557 + -1.2
119,558 - +0.0
119,564 - -0.6
119,607 - -1.2
119,674 + +0.7
119,675 - +2.9
119,680 + -0.7
119,680 + -0.7
119,681 - +0.5
119,688 - -1.0
119,712 - -1.5
119,747 - HMPREF1078_RS17050 0.10 -1.0
119,803 - HMPREF1078_RS17050 0.19 -1.4
119,803 - HMPREF1078_RS17050 0.19 -1.0
119,928 - HMPREF1078_RS17050 0.37 -0.7
119,928 - HMPREF1078_RS17050 0.37 -3.1
119,928 - HMPREF1078_RS17050 0.37 -2.6
119,928 - HMPREF1078_RS17050 0.37 -0.7
119,994 - HMPREF1078_RS17050 0.47 -0.0
120,036 - HMPREF1078_RS17050 0.54 -1.4
120,116 - HMPREF1078_RS17050 0.66 -0.0
120,169 - HMPREF1078_RS17050 0.74 -2.3
120,181 - HMPREF1078_RS17050 0.75 -0.0
120,256 - HMPREF1078_RS17050 0.87 -0.5
120,256 - HMPREF1078_RS17050 0.87 -0.3
120,260 - HMPREF1078_RS17050 0.87 -2.3
120,260 - HMPREF1078_RS17050 0.87 -2.4
120,260 - HMPREF1078_RS17050 0.87 +0.7
120,271 - HMPREF1078_RS17050 0.89 -0.5
120,273 - HMPREF1078_RS17050 0.89 +0.7
120,279 - -0.0
120,279 - +0.3
120,279 - -0.3
120,281 - -1.6
120,350 - -0.9
120,350 - +3.6
120,350 - -1.5
120,352 - +0.4
120,358 - -2.0
120,358 - -1.0
120,400 - -2.7
120,400 - -4.4
120,400 - +0.4
120,400 - +0.5
120,400 - -3.0
120,404 - -1.8
120,423 - -5.8
120,427 - -1.0
120,448 + -1.2
120,467 + -3.6
120,467 + +2.3
120,512 - -4.3
120,533 - -2.9
120,533 - -1.6
120,641 + -1.7
120,642 - -1.7
120,678 - HMPREF1078_RS17055 0.11 +0.6
120,682 + HMPREF1078_RS17055 0.11 -0.2
120,682 + HMPREF1078_RS17055 0.11 -0.5
120,682 + HMPREF1078_RS17055 0.11 +0.7
120,682 + HMPREF1078_RS17055 0.11 +1.0
120,682 + HMPREF1078_RS17055 0.11 -3.1
120,683 - HMPREF1078_RS17055 0.11 -0.8
120,683 - HMPREF1078_RS17055 0.11 -4.0
120,687 - HMPREF1078_RS17055 0.12 -1.4
120,694 - HMPREF1078_RS17055 0.12 -2.3
120,694 - HMPREF1078_RS17055 0.12 -0.7
120,721 + HMPREF1078_RS17055 0.14 +0.8
120,722 - HMPREF1078_RS17055 0.14 -1.1
120,740 + HMPREF1078_RS17055 0.15 -0.5
120,740 + HMPREF1078_RS17055 0.15 -2.4
120,740 + HMPREF1078_RS17055 0.15 +0.5
120,740 + HMPREF1078_RS17055 0.15 -0.7
120,740 + HMPREF1078_RS17055 0.15 +0.9
120,741 - HMPREF1078_RS17055 0.15 +0.8
120,744 + HMPREF1078_RS17055 0.16 -0.0
120,744 + HMPREF1078_RS17055 0.16 -1.4
120,745 - HMPREF1078_RS17055 0.16 -2.5
120,745 - HMPREF1078_RS17055 0.16 +0.1
120,745 - HMPREF1078_RS17055 0.16 -4.8
120,745 - HMPREF1078_RS17055 0.16 +1.0
120,826 + HMPREF1078_RS17055 0.22 -0.0
120,840 + HMPREF1078_RS17055 0.23 -0.3
120,879 - HMPREF1078_RS17055 0.26 -4.4
121,142 + HMPREF1078_RS17055 0.45 -3.3
121,143 - HMPREF1078_RS17055 0.45 -2.6
121,143 - HMPREF1078_RS17055 0.45 -4.2
121,157 + HMPREF1078_RS17055 0.46 -3.2
121,176 - HMPREF1078_RS17055 0.48 -2.6
121,176 - HMPREF1078_RS17055 0.48 -2.8
121,219 + HMPREF1078_RS17055 0.51 +0.5
121,227 - HMPREF1078_RS17055 0.51 -0.3
121,240 - HMPREF1078_RS17055 0.52 +0.2
121,275 - HMPREF1078_RS17055 0.55 -0.6
121,296 + HMPREF1078_RS17055 0.56 -3.2
121,297 - HMPREF1078_RS17055 0.56 -0.0
121,300 + HMPREF1078_RS17055 0.57 -1.4
121,300 + HMPREF1078_RS17055 0.57 -1.4
121,301 - HMPREF1078_RS17055 0.57 -1.3
121,301 - HMPREF1078_RS17055 0.57 -2.6

Or see this region's nucleotide sequence