Strain Fitness in Parabacteroides merdae CL09T00C40 around HMPREF1078_RS19825

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; day4

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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_RS07220 and HMPREF1078_RS07225 are separated by 111 nucleotidesHMPREF1078_RS07225 and HMPREF1078_RS19825 are separated by 46 nucleotidesHMPREF1078_RS19825 and HMPREF1078_RS19830 are separated by 15 nucleotidesHMPREF1078_RS19830 and HMPREF1078_RS07235 are separated by 245 nucleotides HMPREF1078_RS07220: HMPREF1078_RS07220 - 2-oxoacid:ferredoxin oxidoreductase subunit beta, at 867,253 to 868,269 _RS07220 HMPREF1078_RS07225: HMPREF1078_RS07225 - nucleotidyltransferase family protein, at 868,381 to 868,674 _RS07225 HMPREF1078_RS19825: HMPREF1078_RS19825 - hypothetical protein, at 868,721 to 868,897 _RS19825 HMPREF1078_RS19830: HMPREF1078_RS19830 - DUF86 domain-containing protein, at 868,913 to 869,062 _RS19830 HMPREF1078_RS07235: HMPREF1078_RS07235 - phosphoenolpyruvate carboxykinase (ATP), at 869,308 to 870,915 _RS07235 Position (kb) 868 869Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 867.832 kb on - strand, within HMPREF1078_RS07220at 867.886 kb on - strand, within HMPREF1078_RS07220at 868.037 kb on + strand, within HMPREF1078_RS07220at 868.038 kb on + strand, within HMPREF1078_RS07220at 868.059 kb on - strand, within HMPREF1078_RS07220at 868.120 kb on - strand, within HMPREF1078_RS07220at 868.165 kb on + strand, within HMPREF1078_RS07220at 868.165 kb on + strand, within HMPREF1078_RS07220at 868.165 kb on + strand, within HMPREF1078_RS07220at 868.166 kb on - strand, within HMPREF1078_RS07220at 868.263 kb on - strandat 868.330 kb on - strandat 868.345 kb on + strandat 868.346 kb on - strandat 868.376 kb on + strandat 868.376 kb on + strandat 868.403 kb on + strandat 868.420 kb on + strand, within HMPREF1078_RS07225at 868.420 kb on + strand, within HMPREF1078_RS07225at 868.421 kb on - strand, within HMPREF1078_RS07225at 868.524 kb on + strand, within HMPREF1078_RS07225at 868.543 kb on + strand, within HMPREF1078_RS07225at 868.547 kb on - strand, within HMPREF1078_RS07225at 868.547 kb on - strand, within HMPREF1078_RS07225at 868.574 kb on + strand, within HMPREF1078_RS07225at 868.575 kb on - strand, within HMPREF1078_RS07225at 868.672 kb on + strandat 868.684 kb on - strandat 868.690 kb on + strandat 868.691 kb on - strandat 868.705 kb on + strandat 868.707 kb on + strandat 868.707 kb on + strandat 868.707 kb on + strandat 868.708 kb on - strandat 868.771 kb on + strand, within HMPREF1078_RS19825at 868.816 kb on - strand, within HMPREF1078_RS19825at 868.872 kb on + strand, within HMPREF1078_RS19825at 868.873 kb on - strand, within HMPREF1078_RS19825at 868.961 kb on - strand, within HMPREF1078_RS19830at 868.976 kb on - strand, within HMPREF1078_RS19830at 868.981 kb on + strand, within HMPREF1078_RS19830at 868.981 kb on + strand, within HMPREF1078_RS19830at 868.982 kb on - strand, within HMPREF1078_RS19830at 868.986 kb on + strand, within HMPREF1078_RS19830at 868.987 kb on - strand, within HMPREF1078_RS19830at 868.987 kb on - strand, within HMPREF1078_RS19830at 868.987 kb on - strand, within HMPREF1078_RS19830at 869.028 kb on + strand, within HMPREF1078_RS19830at 869.028 kb on + strand, within HMPREF1078_RS19830at 869.029 kb on - strand, within HMPREF1078_RS19830at 869.050 kb on + strandat 869.050 kb on + strandat 869.051 kb on - strandat 869.051 kb on - strandat 869.051 kb on - strandat 869.051 kb on - strandat 869.084 kb on + strandat 869.085 kb on - strandat 869.100 kb on - strandat 869.165 kb on + strandat 869.165 kb on + strandat 869.165 kb on + strandat 869.165 kb on + strandat 869.252 kb on + strandat 869.252 kb on + strandat 869.277 kb on + strandat 869.277 kb on + strandat 869.279 kb on + strandat 869.279 kb on + strandat 869.279 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; day4
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867,832 - HMPREF1078_RS07220 0.57 -2.7
867,886 - HMPREF1078_RS07220 0.62 -3.4
868,037 + HMPREF1078_RS07220 0.77 -1.8
868,038 + HMPREF1078_RS07220 0.77 -2.4
868,059 - HMPREF1078_RS07220 0.79 -2.7
868,120 - HMPREF1078_RS07220 0.85 +0.0
868,165 + HMPREF1078_RS07220 0.90 -1.5
868,165 + HMPREF1078_RS07220 0.90 -1.8
868,165 + HMPREF1078_RS07220 0.90 +0.3
868,166 - HMPREF1078_RS07220 0.90 -0.7
868,263 - -0.2
868,330 - -1.6
868,345 + -1.0
868,346 - -0.5
868,376 + -1.3
868,376 + -3.3
868,403 + +0.8
868,420 + HMPREF1078_RS07225 0.13 +0.1
868,420 + HMPREF1078_RS07225 0.13 -0.8
868,421 - HMPREF1078_RS07225 0.14 -0.3
868,524 + HMPREF1078_RS07225 0.49 +1.8
868,543 + HMPREF1078_RS07225 0.55 +1.2
868,547 - HMPREF1078_RS07225 0.56 +1.3
868,547 - HMPREF1078_RS07225 0.56 +0.0
868,574 + HMPREF1078_RS07225 0.66 -2.0
868,575 - HMPREF1078_RS07225 0.66 +1.1
868,672 + -0.3
868,684 - -0.8
868,690 + -1.4
868,691 - -0.1
868,705 + -0.8
868,707 + +0.8
868,707 + +0.2
868,707 + +1.3
868,708 - -0.3
868,771 + HMPREF1078_RS19825 0.28 -1.9
868,816 - HMPREF1078_RS19825 0.54 +0.0
868,872 + HMPREF1078_RS19825 0.85 -0.5
868,873 - HMPREF1078_RS19825 0.86 +1.0
868,961 - HMPREF1078_RS19830 0.32 +0.5
868,976 - HMPREF1078_RS19830 0.42 +2.0
868,981 + HMPREF1078_RS19830 0.45 +0.2
868,981 + HMPREF1078_RS19830 0.45 +3.4
868,982 - HMPREF1078_RS19830 0.46 +1.1
868,986 + HMPREF1078_RS19830 0.49 -0.6
868,987 - HMPREF1078_RS19830 0.49 -1.8
868,987 - HMPREF1078_RS19830 0.49 -2.1
868,987 - HMPREF1078_RS19830 0.49 -0.2
869,028 + HMPREF1078_RS19830 0.77 -0.2
869,028 + HMPREF1078_RS19830 0.77 +0.7
869,029 - HMPREF1078_RS19830 0.77 -2.2
869,050 + +0.7
869,050 + -1.3
869,051 - -1.3
869,051 - +0.3
869,051 - +0.7
869,051 - -0.5
869,084 + -0.2
869,085 - -1.0
869,100 - +1.6
869,165 + +0.0
869,165 + +0.8
869,165 + -1.8
869,165 + -0.9
869,252 + -0.7
869,252 + +0.5
869,277 + -2.0
869,277 + -0.8
869,279 + -2.0
869,279 + +1.5
869,279 + -2.0

Or see this region's nucleotide sequence