Strain Fitness in Parabacteroides merdae CL09T00C40 around HMPREF1078_RS08010

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_RS08005 and HMPREF1078_RS08010 are separated by 49 nucleotidesHMPREF1078_RS08010 and HMPREF1078_RS08015 are separated by 30 nucleotides HMPREF1078_RS08005: HMPREF1078_RS08005 - efflux RND transporter periplasmic adaptor subunit, at 162,346 to 163,988 _RS08005 HMPREF1078_RS08010: HMPREF1078_RS08010 - helix-turn-helix domain-containing protein, at 164,038 to 164,874 _RS08010 HMPREF1078_RS08015: HMPREF1078_RS08015 - helix-turn-helix domain-containing protein, at 164,905 to 165,711 _RS08015 Position (kb) 164 165Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 163.087 kb on + strand, within HMPREF1078_RS08005at 163.231 kb on + strand, within HMPREF1078_RS08005at 163.299 kb on - strand, within HMPREF1078_RS08005at 163.376 kb on - strand, within HMPREF1078_RS08005at 163.378 kb on - strand, within HMPREF1078_RS08005at 163.516 kb on + strand, within HMPREF1078_RS08005at 163.516 kb on + strand, within HMPREF1078_RS08005at 163.516 kb on + strand, within HMPREF1078_RS08005at 163.577 kb on + strand, within HMPREF1078_RS08005at 163.655 kb on + strand, within HMPREF1078_RS08005at 163.656 kb on - strand, within HMPREF1078_RS08005at 163.770 kb on + strand, within HMPREF1078_RS08005at 163.770 kb on + strand, within HMPREF1078_RS08005at 163.771 kb on - strand, within HMPREF1078_RS08005at 163.771 kb on - strand, within HMPREF1078_RS08005at 163.847 kb on + strandat 163.847 kb on + strandat 163.847 kb on + strandat 163.847 kb on + strandat 163.854 kb on - strandat 163.858 kb on + strandat 163.859 kb on - strandat 163.926 kb on + strandat 163.926 kb on + strandat 163.926 kb on + strandat 163.927 kb on - strandat 163.930 kb on + strandat 163.930 kb on + strandat 163.930 kb on + strandat 163.931 kb on - strandat 163.931 kb on - strandat 163.931 kb on - strandat 163.931 kb on - strandat 163.931 kb on - strandat 163.931 kb on - strandat 163.931 kb on - strandat 163.931 kb on - strandat 163.932 kb on + strandat 163.933 kb on - strandat 163.978 kb on - strandat 164.033 kb on + strandat 164.033 kb on + strandat 164.157 kb on + strand, within HMPREF1078_RS08010at 164.212 kb on - strand, within HMPREF1078_RS08010at 164.235 kb on - strand, within HMPREF1078_RS08010at 164.247 kb on + strand, within HMPREF1078_RS08010at 164.313 kb on + strand, within HMPREF1078_RS08010at 164.313 kb on + strand, within HMPREF1078_RS08010at 164.319 kb on - strand, within HMPREF1078_RS08010at 164.413 kb on + strand, within HMPREF1078_RS08010at 164.413 kb on + strand, within HMPREF1078_RS08010at 164.414 kb on - strand, within HMPREF1078_RS08010at 164.414 kb on - strand, within HMPREF1078_RS08010at 164.416 kb on + strand, within HMPREF1078_RS08010at 164.416 kb on + strand, within HMPREF1078_RS08010at 164.416 kb on + strand, within HMPREF1078_RS08010at 164.417 kb on - strand, within HMPREF1078_RS08010at 164.422 kb on - strand, within HMPREF1078_RS08010at 164.609 kb on - strand, within HMPREF1078_RS08010at 164.609 kb on - strand, within HMPREF1078_RS08010at 164.609 kb on - strand, within HMPREF1078_RS08010at 164.609 kb on - strand, within HMPREF1078_RS08010at 164.610 kb on + strand, within HMPREF1078_RS08010at 164.610 kb on + strand, within HMPREF1078_RS08010at 164.610 kb on + strand, within HMPREF1078_RS08010at 164.610 kb on + strand, within HMPREF1078_RS08010at 164.610 kb on + strand, within HMPREF1078_RS08010at 164.611 kb on - strand, within HMPREF1078_RS08010at 164.611 kb on - strand, within HMPREF1078_RS08010at 164.611 kb on - strand, within HMPREF1078_RS08010at 164.642 kb on + strand, within HMPREF1078_RS08010at 164.642 kb on + strand, within HMPREF1078_RS08010at 164.643 kb on - strand, within HMPREF1078_RS08010at 164.767 kb on + strand, within HMPREF1078_RS08010at 164.878 kb on - strandat 164.878 kb on - strandat 164.935 kb on - strandat 164.967 kb on - strandat 164.979 kb on + strandat 164.988 kb on + strand, within HMPREF1078_RS08015at 165.025 kb on + strand, within HMPREF1078_RS08015at 165.025 kb on + strand, within HMPREF1078_RS08015at 165.046 kb on + strand, within HMPREF1078_RS08015at 165.047 kb on - strand, within HMPREF1078_RS08015at 165.047 kb on - strand, within HMPREF1078_RS08015at 165.050 kb on + strand, within HMPREF1078_RS08015at 165.050 kb on + strand, within HMPREF1078_RS08015at 165.051 kb on - strand, within HMPREF1078_RS08015at 165.051 kb on - strand, within HMPREF1078_RS08015at 165.093 kb on + strand, within HMPREF1078_RS08015at 165.337 kb on - strand, within HMPREF1078_RS08015at 165.338 kb on + strand, within HMPREF1078_RS08015at 165.339 kb on - strand, within HMPREF1078_RS08015at 165.423 kb on - strand, within HMPREF1078_RS08015at 165.423 kb on - strand, within HMPREF1078_RS08015at 165.423 kb on - strand, within HMPREF1078_RS08015at 165.463 kb on + strand, within HMPREF1078_RS08015at 165.511 kb on + strand, within HMPREF1078_RS08015at 165.512 kb on - strand, within HMPREF1078_RS08015at 165.677 kb on + strandat 165.699 kb on + strandat 165.699 kb on + strandat 165.755 kb on + strandat 165.755 kb on + strandat 165.756 kb on - strandat 165.756 kb on - strandat 165.769 kb on - strandat 165.769 kb on - strandat 165.769 kb on - strandat 165.769 kb on - strandat 165.777 kb on - strandat 165.777 kb on - strandat 165.778 kb on + strandat 165.779 kb on - strandat 165.811 kb on - strandat 165.813 kb on + strandat 165.813 kb on + strandat 165.824 kb on - strandat 165.825 kb on + strandat 165.832 kb on + strandat 165.833 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day3
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163,087 + HMPREF1078_RS08005 0.45 +1.8
163,231 + HMPREF1078_RS08005 0.54 -0.7
163,299 - HMPREF1078_RS08005 0.58 +0.4
163,376 - HMPREF1078_RS08005 0.63 -1.4
163,378 - HMPREF1078_RS08005 0.63 +0.6
163,516 + HMPREF1078_RS08005 0.71 -0.8
163,516 + HMPREF1078_RS08005 0.71 +2.0
163,516 + HMPREF1078_RS08005 0.71 +1.2
163,577 + HMPREF1078_RS08005 0.75 -3.7
163,655 + HMPREF1078_RS08005 0.80 +1.5
163,656 - HMPREF1078_RS08005 0.80 -0.2
163,770 + HMPREF1078_RS08005 0.87 +0.8
163,770 + HMPREF1078_RS08005 0.87 -1.7
163,771 - HMPREF1078_RS08005 0.87 +2.0
163,771 - HMPREF1078_RS08005 0.87 -0.8
163,847 + +0.8
163,847 + -0.4
163,847 + +0.3
163,847 + -1.5
163,854 - +0.2
163,858 + +1.7
163,859 - -0.7
163,926 + +0.7
163,926 + -0.3
163,926 + +2.6
163,927 - +0.4
163,930 + +0.1
163,930 + -0.8
163,930 + -0.6
163,931 - -1.5
163,931 - +2.0
163,931 - -1.1
163,931 - -0.4
163,931 - +1.8
163,931 - -0.1
163,931 - -2.6
163,931 - +2.5
163,932 + -3.1
163,933 - -0.4
163,978 - +0.6
164,033 + -0.9
164,033 + +0.1
164,157 + HMPREF1078_RS08010 0.14 -3.1
164,212 - HMPREF1078_RS08010 0.21 +0.1
164,235 - HMPREF1078_RS08010 0.24 +0.2
164,247 + HMPREF1078_RS08010 0.25 -0.6
164,313 + HMPREF1078_RS08010 0.33 +0.4
164,313 + HMPREF1078_RS08010 0.33 -1.8
164,319 - HMPREF1078_RS08010 0.34 -0.4
164,413 + HMPREF1078_RS08010 0.45 -3.7
164,413 + HMPREF1078_RS08010 0.45 -0.8
164,414 - HMPREF1078_RS08010 0.45 -1.4
164,414 - HMPREF1078_RS08010 0.45 -0.9
164,416 + HMPREF1078_RS08010 0.45 +1.6
164,416 + HMPREF1078_RS08010 0.45 -3.0
164,416 + HMPREF1078_RS08010 0.45 -2.1
164,417 - HMPREF1078_RS08010 0.45 +0.6
164,422 - HMPREF1078_RS08010 0.46 -2.5
164,609 - HMPREF1078_RS08010 0.68 -0.2
164,609 - HMPREF1078_RS08010 0.68 -0.9
164,609 - HMPREF1078_RS08010 0.68 +2.3
164,609 - HMPREF1078_RS08010 0.68 -1.4
164,610 + HMPREF1078_RS08010 0.68 -1.1
164,610 + HMPREF1078_RS08010 0.68 -1.8
164,610 + HMPREF1078_RS08010 0.68 +2.0
164,610 + HMPREF1078_RS08010 0.68 +0.5
164,610 + HMPREF1078_RS08010 0.68 +0.3
164,611 - HMPREF1078_RS08010 0.68 -1.8
164,611 - HMPREF1078_RS08010 0.68 -1.1
164,611 - HMPREF1078_RS08010 0.68 -2.2
164,642 + HMPREF1078_RS08010 0.72 +0.3
164,642 + HMPREF1078_RS08010 0.72 -1.3
164,643 - HMPREF1078_RS08010 0.72 -0.8
164,767 + HMPREF1078_RS08010 0.87 -0.1
164,878 - -3.3
164,878 - +0.6
164,935 - +1.2
164,967 - +1.2
164,979 + -1.6
164,988 + HMPREF1078_RS08015 0.10 +2.1
165,025 + HMPREF1078_RS08015 0.15 -3.6
165,025 + HMPREF1078_RS08015 0.15 -1.6
165,046 + HMPREF1078_RS08015 0.17 +1.0
165,047 - HMPREF1078_RS08015 0.18 +0.3
165,047 - HMPREF1078_RS08015 0.18 -0.2
165,050 + HMPREF1078_RS08015 0.18 +0.5
165,050 + HMPREF1078_RS08015 0.18 +2.2
165,051 - HMPREF1078_RS08015 0.18 +0.4
165,051 - HMPREF1078_RS08015 0.18 +0.0
165,093 + HMPREF1078_RS08015 0.23 -0.6
165,337 - HMPREF1078_RS08015 0.54 +0.1
165,338 + HMPREF1078_RS08015 0.54 +0.5
165,339 - HMPREF1078_RS08015 0.54 -1.6
165,423 - HMPREF1078_RS08015 0.64 -2.1
165,423 - HMPREF1078_RS08015 0.64 +2.2
165,423 - HMPREF1078_RS08015 0.64 +0.1
165,463 + HMPREF1078_RS08015 0.69 +0.0
165,511 + HMPREF1078_RS08015 0.75 +1.6
165,512 - HMPREF1078_RS08015 0.75 +1.1
165,677 + +1.6
165,699 + -1.2
165,699 + -0.2
165,755 + -1.0
165,755 + -0.1
165,756 - -0.6
165,756 - -0.6
165,769 - -1.1
165,769 - -0.1
165,769 - -1.0
165,769 - -3.9
165,777 - -2.2
165,777 - -0.2
165,778 + -0.1
165,779 - -2.8
165,811 - -1.2
165,813 + +1.1
165,813 + -0.4
165,824 - -2.3
165,825 + -0.9
165,832 + -1.8
165,833 - -3.0

Or see this region's nucleotide sequence