Strain Fitness in Parabacteroides merdae CL09T00C40 around HMPREF1078_RS08405

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse20; day7

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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_RS08400 and HMPREF1078_RS08405 are separated by 3 nucleotidesHMPREF1078_RS08405 and HMPREF1078_RS08410 are separated by 42 nucleotides HMPREF1078_RS08400: HMPREF1078_RS08400 - hypothetical protein, at 252,052 to 253,008 _RS08400 HMPREF1078_RS08405: HMPREF1078_RS08405 - DUF2148 domain-containing protein, at 253,012 to 253,545 _RS08405 HMPREF1078_RS08410: HMPREF1078_RS08410 - KamA family protein, at 253,588 to 255,699 _RS08410 Position (kb) 253 254Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 252.015 kb on + strandat 252.015 kb on + strandat 252.017 kb on + strandat 252.017 kb on + strandat 252.018 kb on - strandat 252.051 kb on - strandat 252.177 kb on - strand, within HMPREF1078_RS08400at 252.199 kb on + strand, within HMPREF1078_RS08400at 252.199 kb on + strand, within HMPREF1078_RS08400at 252.200 kb on - strand, within HMPREF1078_RS08400at 252.238 kb on + strand, within HMPREF1078_RS08400at 252.238 kb on + strand, within HMPREF1078_RS08400at 252.239 kb on + strand, within HMPREF1078_RS08400at 252.239 kb on - strand, within HMPREF1078_RS08400at 252.239 kb on - strand, within HMPREF1078_RS08400at 252.246 kb on + strand, within HMPREF1078_RS08400at 252.247 kb on - strand, within HMPREF1078_RS08400at 252.247 kb on - strand, within HMPREF1078_RS08400at 252.247 kb on - strand, within HMPREF1078_RS08400at 252.280 kb on - strand, within HMPREF1078_RS08400at 252.280 kb on - strand, within HMPREF1078_RS08400at 252.338 kb on + strand, within HMPREF1078_RS08400at 252.338 kb on + strand, within HMPREF1078_RS08400at 252.392 kb on - strand, within HMPREF1078_RS08400at 252.443 kb on + strand, within HMPREF1078_RS08400at 252.444 kb on - strand, within HMPREF1078_RS08400at 252.444 kb on - strand, within HMPREF1078_RS08400at 252.444 kb on - strand, within HMPREF1078_RS08400at 252.446 kb on + strand, within HMPREF1078_RS08400at 252.447 kb on - strand, within HMPREF1078_RS08400at 252.515 kb on - strand, within HMPREF1078_RS08400at 252.628 kb on - strand, within HMPREF1078_RS08400at 252.657 kb on + strand, within HMPREF1078_RS08400at 252.665 kb on - strand, within HMPREF1078_RS08400at 252.754 kb on + strand, within HMPREF1078_RS08400at 252.755 kb on - strand, within HMPREF1078_RS08400at 252.911 kb on - strand, within HMPREF1078_RS08400at 252.960 kb on + strandat 252.961 kb on - strandat 253.004 kb on - strandat 253.004 kb on - strandat 253.008 kb on + strandat 253.008 kb on + strandat 253.009 kb on - strandat 253.009 kb on - strandat 253.013 kb on + strandat 253.013 kb on + strandat 253.014 kb on - strandat 253.014 kb on - strandat 253.146 kb on + strand, within HMPREF1078_RS08405at 253.212 kb on + strand, within HMPREF1078_RS08405at 253.332 kb on + strand, within HMPREF1078_RS08405at 253.440 kb on + strand, within HMPREF1078_RS08405at 253.505 kb on - strandat 253.511 kb on + strandat 253.511 kb on + strandat 253.512 kb on - strandat 253.540 kb on + strandat 253.549 kb on - strandat 253.550 kb on + strandat 253.576 kb on + strandat 253.576 kb on + strandat 253.580 kb on + strandat 253.645 kb on + strandat 253.646 kb on + strandat 253.646 kb on + strandat 253.692 kb on + strandat 253.692 kb on + strandat 253.698 kb on + strandat 253.701 kb on - strandat 253.743 kb on - strandat 253.772 kb on + strandat 253.773 kb on - strandat 253.773 kb on - strandat 253.773 kb on - strandat 253.975 kb on + strand, within HMPREF1078_RS08410at 254.031 kb on + strand, within HMPREF1078_RS08410at 254.065 kb on + strand, within HMPREF1078_RS08410at 254.066 kb on - strand, within HMPREF1078_RS08410at 254.077 kb on - strand, within HMPREF1078_RS08410at 254.080 kb on - strand, within HMPREF1078_RS08410at 254.208 kb on - strand, within HMPREF1078_RS08410at 254.314 kb on - strand, within HMPREF1078_RS08410at 254.322 kb on + strand, within HMPREF1078_RS08410at 254.500 kb on - strand, within HMPREF1078_RS08410at 254.515 kb on + strand, within HMPREF1078_RS08410at 254.515 kb on + strand, within HMPREF1078_RS08410at 254.516 kb on - strand, within HMPREF1078_RS08410at 254.516 kb on - strand, within HMPREF1078_RS08410at 254.516 kb on - strand, within HMPREF1078_RS08410at 254.516 kb on - strand, within HMPREF1078_RS08410at 254.516 kb on - strand, within HMPREF1078_RS08410at 254.516 kb on - strand, within HMPREF1078_RS08410

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse20; day7
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252,015 + +0.1
252,015 + -0.7
252,017 + +2.1
252,017 + +1.1
252,018 - -0.1
252,051 - -1.2
252,177 - HMPREF1078_RS08400 0.13 -1.3
252,199 + HMPREF1078_RS08400 0.15 -1.3
252,199 + HMPREF1078_RS08400 0.15 -1.3
252,200 - HMPREF1078_RS08400 0.15 -0.5
252,238 + HMPREF1078_RS08400 0.19 -2.0
252,238 + HMPREF1078_RS08400 0.19 +0.2
252,239 + HMPREF1078_RS08400 0.20 -0.9
252,239 - HMPREF1078_RS08400 0.20 +0.5
252,239 - HMPREF1078_RS08400 0.20 +0.1
252,246 + HMPREF1078_RS08400 0.20 -0.6
252,247 - HMPREF1078_RS08400 0.20 -0.3
252,247 - HMPREF1078_RS08400 0.20 +0.6
252,247 - HMPREF1078_RS08400 0.20 -1.6
252,280 - HMPREF1078_RS08400 0.24 +1.1
252,280 - HMPREF1078_RS08400 0.24 -1.4
252,338 + HMPREF1078_RS08400 0.30 -0.1
252,338 + HMPREF1078_RS08400 0.30 +0.1
252,392 - HMPREF1078_RS08400 0.36 +1.0
252,443 + HMPREF1078_RS08400 0.41 -0.9
252,444 - HMPREF1078_RS08400 0.41 -3.0
252,444 - HMPREF1078_RS08400 0.41 -0.2
252,444 - HMPREF1078_RS08400 0.41 -0.1
252,446 + HMPREF1078_RS08400 0.41 +1.5
252,447 - HMPREF1078_RS08400 0.41 -0.2
252,515 - HMPREF1078_RS08400 0.48 -2.0
252,628 - HMPREF1078_RS08400 0.60 -0.7
252,657 + HMPREF1078_RS08400 0.63 -0.9
252,665 - HMPREF1078_RS08400 0.64 -0.8
252,754 + HMPREF1078_RS08400 0.73 +2.1
252,755 - HMPREF1078_RS08400 0.73 -0.9
252,911 - HMPREF1078_RS08400 0.90 -0.7
252,960 + -0.7
252,961 - +0.7
253,004 - -1.5
253,004 - +0.3
253,008 + +2.1
253,008 + -0.7
253,009 - -0.1
253,009 - -1.8
253,013 + +0.2
253,013 + -1.1
253,014 - -0.7
253,014 - +0.9
253,146 + HMPREF1078_RS08405 0.25 +0.5
253,212 + HMPREF1078_RS08405 0.37 -0.2
253,332 + HMPREF1078_RS08405 0.60 -0.7
253,440 + HMPREF1078_RS08405 0.80 -0.2
253,505 - -1.5
253,511 + -0.9
253,511 + +0.1
253,512 - -1.0
253,540 + +1.9
253,549 - -1.8
253,550 + -2.3
253,576 + +0.5
253,576 + -0.9
253,580 + -0.2
253,645 + -1.1
253,646 + -0.5
253,646 + -0.2
253,692 + -1.2
253,692 + -0.6
253,698 + -0.1
253,701 - +0.1
253,743 - -0.2
253,772 + -0.7
253,773 - -0.8
253,773 - +2.1
253,773 - -0.5
253,975 + HMPREF1078_RS08410 0.18 -1.5
254,031 + HMPREF1078_RS08410 0.21 +0.5
254,065 + HMPREF1078_RS08410 0.23 -1.5
254,066 - HMPREF1078_RS08410 0.23 +0.7
254,077 - HMPREF1078_RS08410 0.23 -0.6
254,080 - HMPREF1078_RS08410 0.23 -0.2
254,208 - HMPREF1078_RS08410 0.29 +1.3
254,314 - HMPREF1078_RS08410 0.34 +0.3
254,322 + HMPREF1078_RS08410 0.35 +1.9
254,500 - HMPREF1078_RS08410 0.43 -0.2
254,515 + HMPREF1078_RS08410 0.44 -0.5
254,515 + HMPREF1078_RS08410 0.44 -0.1
254,516 - HMPREF1078_RS08410 0.44 +0.1
254,516 - HMPREF1078_RS08410 0.44 -1.2
254,516 - HMPREF1078_RS08410 0.44 +2.1
254,516 - HMPREF1078_RS08410 0.44 -0.7
254,516 - HMPREF1078_RS08410 0.44 +0.1
254,516 - HMPREF1078_RS08410 0.44 -2.5

Or see this region's nucleotide sequence