Strain Fitness in Parabacteroides merdae CL09T00C40 around HMPREF1078_RS15235

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_RS15230 and HMPREF1078_RS15235 are separated by 36 nucleotidesHMPREF1078_RS15235 and HMPREF1078_RS15240 are separated by 4 nucleotides HMPREF1078_RS15230: HMPREF1078_RS15230 - family 43 glycosylhydrolase, at 127,160 to 130,117 _RS15230 HMPREF1078_RS15235: HMPREF1078_RS15235 - glycoside hydrolase family 2 TIM barrel-domain containing protein, at 130,154 to 131,965 _RS15235 HMPREF1078_RS15240: HMPREF1078_RS15240 - glycoside hydrolase family 2 TIM barrel-domain containing protein, at 131,970 to 133,823 _RS15240 Position (kb) 130 131 132Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3 4at 129.273 kb on - strand, within HMPREF1078_RS15230at 129.298 kb on + strand, within HMPREF1078_RS15230at 129.308 kb on - strand, within HMPREF1078_RS15230at 129.405 kb on + strand, within HMPREF1078_RS15230at 129.406 kb on - strand, within HMPREF1078_RS15230at 129.427 kb on + strand, within HMPREF1078_RS15230at 129.430 kb on + strand, within HMPREF1078_RS15230at 129.440 kb on + strand, within HMPREF1078_RS15230at 129.441 kb on - strand, within HMPREF1078_RS15230at 129.441 kb on - strand, within HMPREF1078_RS15230at 129.445 kb on - strand, within HMPREF1078_RS15230at 129.450 kb on - strand, within HMPREF1078_RS15230at 129.450 kb on - strand, within HMPREF1078_RS15230at 129.502 kb on + strand, within HMPREF1078_RS15230at 129.503 kb on - strand, within HMPREF1078_RS15230at 129.734 kb on + strand, within HMPREF1078_RS15230at 129.734 kb on + strand, within HMPREF1078_RS15230at 129.734 kb on + strand, within HMPREF1078_RS15230at 129.734 kb on + strand, within HMPREF1078_RS15230at 129.735 kb on - strand, within HMPREF1078_RS15230at 129.735 kb on - strand, within HMPREF1078_RS15230at 129.735 kb on - strand, within HMPREF1078_RS15230at 129.735 kb on - strand, within HMPREF1078_RS15230at 129.759 kb on - strand, within HMPREF1078_RS15230at 129.805 kb on + strand, within HMPREF1078_RS15230at 129.806 kb on - strand, within HMPREF1078_RS15230at 129.809 kb on + strand, within HMPREF1078_RS15230at 129.809 kb on + strand, within HMPREF1078_RS15230at 129.809 kb on + strand, within HMPREF1078_RS15230at 129.810 kb on - strand, within HMPREF1078_RS15230at 129.810 kb on - strand, within HMPREF1078_RS15230at 129.810 kb on - strand, within HMPREF1078_RS15230at 129.811 kb on + strand, within HMPREF1078_RS15230at 129.812 kb on - strand, within HMPREF1078_RS15230at 129.938 kb on - strandat 130.086 kb on + strandat 130.146 kb on + strandat 130.167 kb on + strandat 130.167 kb on + strandat 130.173 kb on + strandat 130.173 kb on + strandat 130.174 kb on - strandat 130.231 kb on + strandat 130.391 kb on - strand, within HMPREF1078_RS15235at 130.469 kb on + strand, within HMPREF1078_RS15235at 130.471 kb on + strand, within HMPREF1078_RS15235at 130.471 kb on + strand, within HMPREF1078_RS15235at 130.471 kb on + strand, within HMPREF1078_RS15235at 130.472 kb on - strand, within HMPREF1078_RS15235at 130.472 kb on - strand, within HMPREF1078_RS15235at 130.666 kb on - strand, within HMPREF1078_RS15235at 130.680 kb on - strand, within HMPREF1078_RS15235at 130.681 kb on + strand, within HMPREF1078_RS15235at 130.765 kb on - strand, within HMPREF1078_RS15235at 130.819 kb on + strand, within HMPREF1078_RS15235at 131.049 kb on + strand, within HMPREF1078_RS15235at 131.059 kb on + strand, within HMPREF1078_RS15235at 131.133 kb on + strand, within HMPREF1078_RS15235at 131.289 kb on - strand, within HMPREF1078_RS15235at 131.289 kb on - strand, within HMPREF1078_RS15235at 131.289 kb on - strand, within HMPREF1078_RS15235at 131.308 kb on + strand, within HMPREF1078_RS15235at 131.308 kb on + strand, within HMPREF1078_RS15235at 131.352 kb on - strand, within HMPREF1078_RS15235at 131.398 kb on + strand, within HMPREF1078_RS15235at 131.398 kb on + strand, within HMPREF1078_RS15235at 131.399 kb on - strand, within HMPREF1078_RS15235at 131.399 kb on - strand, within HMPREF1078_RS15235at 131.547 kb on - strand, within HMPREF1078_RS15235at 131.547 kb on - strand, within HMPREF1078_RS15235at 131.547 kb on - strand, within HMPREF1078_RS15235at 131.620 kb on + strand, within HMPREF1078_RS15235at 131.621 kb on - strand, within HMPREF1078_RS15235at 131.741 kb on + strand, within HMPREF1078_RS15235at 131.789 kb on + strandat 131.840 kb on + strandat 131.840 kb on + strandat 131.888 kb on + strandat 131.889 kb on - strandat 132.144 kb on + strandat 132.312 kb on + strand, within HMPREF1078_RS15240at 132.330 kb on + strand, within HMPREF1078_RS15240at 132.331 kb on - strand, within HMPREF1078_RS15240at 132.392 kb on + strand, within HMPREF1078_RS15240at 132.392 kb on + strand, within HMPREF1078_RS15240at 132.403 kb on + strand, within HMPREF1078_RS15240at 132.436 kb on - strand, within HMPREF1078_RS15240at 132.514 kb on - strand, within HMPREF1078_RS15240at 132.784 kb on - strand, within HMPREF1078_RS15240at 132.823 kb on + strand, within HMPREF1078_RS15240at 132.896 kb on + strand, within HMPREF1078_RS15240at 132.907 kb on - strand, within HMPREF1078_RS15240at 132.907 kb on - strand, within HMPREF1078_RS15240

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day3
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129,273 - HMPREF1078_RS15230 0.71 +1.5
129,298 + HMPREF1078_RS15230 0.72 -1.9
129,308 - HMPREF1078_RS15230 0.73 -1.4
129,405 + HMPREF1078_RS15230 0.76 -2.9
129,406 - HMPREF1078_RS15230 0.76 +1.3
129,427 + HMPREF1078_RS15230 0.77 -0.6
129,430 + HMPREF1078_RS15230 0.77 -1.2
129,440 + HMPREF1078_RS15230 0.77 -2.8
129,441 - HMPREF1078_RS15230 0.77 +1.1
129,441 - HMPREF1078_RS15230 0.77 +0.6
129,445 - HMPREF1078_RS15230 0.77 -2.7
129,450 - HMPREF1078_RS15230 0.77 -3.4
129,450 - HMPREF1078_RS15230 0.77 +1.1
129,502 + HMPREF1078_RS15230 0.79 -1.2
129,503 - HMPREF1078_RS15230 0.79 -1.6
129,734 + HMPREF1078_RS15230 0.87 -0.2
129,734 + HMPREF1078_RS15230 0.87 +2.6
129,734 + HMPREF1078_RS15230 0.87 -2.2
129,734 + HMPREF1078_RS15230 0.87 +4.0
129,735 - HMPREF1078_RS15230 0.87 -0.2
129,735 - HMPREF1078_RS15230 0.87 +0.7
129,735 - HMPREF1078_RS15230 0.87 -1.3
129,735 - HMPREF1078_RS15230 0.87 -2.1
129,759 - HMPREF1078_RS15230 0.88 +1.7
129,805 + HMPREF1078_RS15230 0.89 -0.2
129,806 - HMPREF1078_RS15230 0.89 -0.7
129,809 + HMPREF1078_RS15230 0.90 +1.2
129,809 + HMPREF1078_RS15230 0.90 -0.1
129,809 + HMPREF1078_RS15230 0.90 +1.2
129,810 - HMPREF1078_RS15230 0.90 +1.5
129,810 - HMPREF1078_RS15230 0.90 +2.9
129,810 - HMPREF1078_RS15230 0.90 +2.9
129,811 + HMPREF1078_RS15230 0.90 -0.9
129,812 - HMPREF1078_RS15230 0.90 +0.3
129,938 - -1.1
130,086 + -0.7
130,146 + +1.6
130,167 + -0.6
130,167 + -0.9
130,173 + +1.4
130,173 + -2.1
130,174 - +0.7
130,231 + -1.0
130,391 - HMPREF1078_RS15235 0.13 +0.8
130,469 + HMPREF1078_RS15235 0.17 +0.1
130,471 + HMPREF1078_RS15235 0.17 -0.9
130,471 + HMPREF1078_RS15235 0.17 +1.2
130,471 + HMPREF1078_RS15235 0.17 -2.7
130,472 - HMPREF1078_RS15235 0.18 -2.2
130,472 - HMPREF1078_RS15235 0.18 +0.2
130,666 - HMPREF1078_RS15235 0.28 +0.7
130,680 - HMPREF1078_RS15235 0.29 +0.1
130,681 + HMPREF1078_RS15235 0.29 +0.4
130,765 - HMPREF1078_RS15235 0.34 -1.4
130,819 + HMPREF1078_RS15235 0.37 +0.3
131,049 + HMPREF1078_RS15235 0.49 +0.3
131,059 + HMPREF1078_RS15235 0.50 +1.0
131,133 + HMPREF1078_RS15235 0.54 -0.9
131,289 - HMPREF1078_RS15235 0.63 -1.8
131,289 - HMPREF1078_RS15235 0.63 -0.2
131,289 - HMPREF1078_RS15235 0.63 -3.2
131,308 + HMPREF1078_RS15235 0.64 -3.3
131,308 + HMPREF1078_RS15235 0.64 +0.6
131,352 - HMPREF1078_RS15235 0.66 +0.9
131,398 + HMPREF1078_RS15235 0.69 +0.1
131,398 + HMPREF1078_RS15235 0.69 -2.4
131,399 - HMPREF1078_RS15235 0.69 -2.4
131,399 - HMPREF1078_RS15235 0.69 -0.6
131,547 - HMPREF1078_RS15235 0.77 -1.4
131,547 - HMPREF1078_RS15235 0.77 +0.1
131,547 - HMPREF1078_RS15235 0.77 +1.1
131,620 + HMPREF1078_RS15235 0.81 -3.9
131,621 - HMPREF1078_RS15235 0.81 -0.9
131,741 + HMPREF1078_RS15235 0.88 -1.0
131,789 + +1.8
131,840 + +0.0
131,840 + -1.6
131,888 + +0.5
131,889 - -1.0
132,144 + +2.6
132,312 + HMPREF1078_RS15240 0.18 -0.2
132,330 + HMPREF1078_RS15240 0.19 -0.1
132,331 - HMPREF1078_RS15240 0.19 +2.1
132,392 + HMPREF1078_RS15240 0.23 -0.8
132,392 + HMPREF1078_RS15240 0.23 +0.5
132,403 + HMPREF1078_RS15240 0.23 -1.2
132,436 - HMPREF1078_RS15240 0.25 -2.9
132,514 - HMPREF1078_RS15240 0.29 -0.2
132,784 - HMPREF1078_RS15240 0.44 +0.6
132,823 + HMPREF1078_RS15240 0.46 +0.8
132,896 + HMPREF1078_RS15240 0.50 +1.5
132,907 - HMPREF1078_RS15240 0.51 +0.5
132,907 - HMPREF1078_RS15240 0.51 -1.7

Or see this region's nucleotide sequence