Strain Fitness in Parabacteroides merdae CL09T00C40 around HMPREF1078_RS09715

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; 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_RS09710 and HMPREF1078_RS09715 are separated by 2 nucleotidesHMPREF1078_RS09715 and HMPREF1078_RS09720 are separated by 46 nucleotides HMPREF1078_RS09710: HMPREF1078_RS09710 - cobyrinate a,c-diamide synthase, at 539,065 to 540,402 _RS09710 HMPREF1078_RS09715: HMPREF1078_RS09715 - 3-methyl-2-oxobutanoate hydroxymethyltransferase, at 540,405 to 541,232 _RS09715 HMPREF1078_RS09720: HMPREF1078_RS09720 - TonB-dependent receptor, at 541,279 to 543,162 _RS09720 Position (kb) 540 541 542Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1 2 3at 539.405 kb on + strand, within HMPREF1078_RS09710at 539.405 kb on + strand, within HMPREF1078_RS09710at 539.405 kb on + strand, within HMPREF1078_RS09710at 539.405 kb on + strand, within HMPREF1078_RS09710at 539.406 kb on - strand, within HMPREF1078_RS09710at 539.504 kb on + strand, within HMPREF1078_RS09710at 539.505 kb on - strand, within HMPREF1078_RS09710at 539.505 kb on - strand, within HMPREF1078_RS09710at 539.507 kb on - strand, within HMPREF1078_RS09710at 539.507 kb on - strand, within HMPREF1078_RS09710at 539.507 kb on - strand, within HMPREF1078_RS09710at 539.580 kb on - strand, within HMPREF1078_RS09710at 539.583 kb on + strand, within HMPREF1078_RS09710at 539.584 kb on - strand, within HMPREF1078_RS09710at 539.624 kb on + strand, within HMPREF1078_RS09710at 539.688 kb on + strand, within HMPREF1078_RS09710at 539.707 kb on - strand, within HMPREF1078_RS09710at 539.761 kb on + strand, within HMPREF1078_RS09710at 539.761 kb on + strand, within HMPREF1078_RS09710at 539.762 kb on - strand, within HMPREF1078_RS09710at 539.762 kb on - strand, within HMPREF1078_RS09710at 539.837 kb on - strand, within HMPREF1078_RS09710at 539.972 kb on - strand, within HMPREF1078_RS09710at 540.006 kb on - strand, within HMPREF1078_RS09710at 540.106 kb on - strand, within HMPREF1078_RS09710at 540.171 kb on - strand, within HMPREF1078_RS09710at 540.253 kb on - strand, within HMPREF1078_RS09710at 540.272 kb on + strandat 540.273 kb on - strandat 540.273 kb on - strandat 540.337 kb on + strandat 540.338 kb on - strandat 540.343 kb on - strandat 540.403 kb on + strandat 540.404 kb on - strandat 540.410 kb on - strandat 540.410 kb on - strandat 540.457 kb on + strandat 540.458 kb on - strandat 540.480 kb on - strandat 540.540 kb on + strand, within HMPREF1078_RS09715at 540.546 kb on - strand, within HMPREF1078_RS09715at 540.748 kb on + strand, within HMPREF1078_RS09715at 540.749 kb on - strand, within HMPREF1078_RS09715at 540.761 kb on + strand, within HMPREF1078_RS09715at 540.762 kb on - strand, within HMPREF1078_RS09715at 540.762 kb on - strand, within HMPREF1078_RS09715at 540.821 kb on + strand, within HMPREF1078_RS09715at 540.867 kb on - strand, within HMPREF1078_RS09715at 541.039 kb on - strand, within HMPREF1078_RS09715at 541.054 kb on - strand, within HMPREF1078_RS09715at 541.202 kb on + strandat 541.243 kb on - strandat 541.268 kb on - strandat 541.338 kb on + strandat 541.339 kb on - strandat 541.339 kb on - strandat 541.396 kb on - strandat 541.403 kb on - strandat 541.415 kb on + strandat 541.416 kb on - strandat 541.474 kb on - strand, within HMPREF1078_RS09720at 541.476 kb on - strand, within HMPREF1078_RS09720at 541.476 kb on - strand, within HMPREF1078_RS09720at 541.527 kb on + strand, within HMPREF1078_RS09720at 541.528 kb on - strand, within HMPREF1078_RS09720at 541.528 kb on - strand, within HMPREF1078_RS09720at 541.528 kb on - strand, within HMPREF1078_RS09720at 541.529 kb on + strand, within HMPREF1078_RS09720at 541.529 kb on + strand, within HMPREF1078_RS09720at 541.544 kb on + strand, within HMPREF1078_RS09720at 541.552 kb on - strand, within HMPREF1078_RS09720at 541.552 kb on - strand, within HMPREF1078_RS09720at 541.572 kb on + strand, within HMPREF1078_RS09720at 541.572 kb on + strand, within HMPREF1078_RS09720at 541.598 kb on + strand, within HMPREF1078_RS09720at 541.605 kb on + strand, within HMPREF1078_RS09720at 541.606 kb on - strand, within HMPREF1078_RS09720at 541.691 kb on + strand, within HMPREF1078_RS09720at 541.692 kb on - strand, within HMPREF1078_RS09720at 541.771 kb on - strand, within HMPREF1078_RS09720at 541.771 kb on - strand, within HMPREF1078_RS09720at 541.814 kb on + strand, within HMPREF1078_RS09720at 541.824 kb on + strand, within HMPREF1078_RS09720at 541.825 kb on - strand, within HMPREF1078_RS09720at 541.825 kb on - strand, within HMPREF1078_RS09720at 541.863 kb on + strand, within HMPREF1078_RS09720at 541.863 kb on + strand, within HMPREF1078_RS09720at 541.864 kb on - strand, within HMPREF1078_RS09720at 541.864 kb on - strand, within HMPREF1078_RS09720at 541.865 kb on + strand, within HMPREF1078_RS09720at 541.865 kb on + strand, within HMPREF1078_RS09720at 541.866 kb on - strand, within HMPREF1078_RS09720at 541.887 kb on + strand, within HMPREF1078_RS09720at 541.939 kb on + strand, within HMPREF1078_RS09720at 541.940 kb on - strand, within HMPREF1078_RS09720at 541.976 kb on + strand, within HMPREF1078_RS09720at 541.977 kb on - strand, within HMPREF1078_RS09720at 541.977 kb on - strand, within HMPREF1078_RS09720at 541.983 kb on + strand, within HMPREF1078_RS09720at 541.984 kb on - strand, within HMPREF1078_RS09720at 542.020 kb on + strand, within HMPREF1078_RS09720at 542.021 kb on - strand, within HMPREF1078_RS09720at 542.106 kb on + strand, within HMPREF1078_RS09720at 542.106 kb on + strand, within HMPREF1078_RS09720

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; day3
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539,405 + HMPREF1078_RS09710 0.25 -1.7
539,405 + HMPREF1078_RS09710 0.25 -0.7
539,405 + HMPREF1078_RS09710 0.25 -0.1
539,405 + HMPREF1078_RS09710 0.25 -1.1
539,406 - HMPREF1078_RS09710 0.25 +1.9
539,504 + HMPREF1078_RS09710 0.33 -1.7
539,505 - HMPREF1078_RS09710 0.33 +2.9
539,505 - HMPREF1078_RS09710 0.33 +0.1
539,507 - HMPREF1078_RS09710 0.33 +0.9
539,507 - HMPREF1078_RS09710 0.33 -0.7
539,507 - HMPREF1078_RS09710 0.33 +1.9
539,580 - HMPREF1078_RS09710 0.38 +0.9
539,583 + HMPREF1078_RS09710 0.39 +2.9
539,584 - HMPREF1078_RS09710 0.39 +0.2
539,624 + HMPREF1078_RS09710 0.42 +1.9
539,688 + HMPREF1078_RS09710 0.47 -1.9
539,707 - HMPREF1078_RS09710 0.48 +2.5
539,761 + HMPREF1078_RS09710 0.52 -0.1
539,761 + HMPREF1078_RS09710 0.52 -0.7
539,762 - HMPREF1078_RS09710 0.52 +1.9
539,762 - HMPREF1078_RS09710 0.52 -0.7
539,837 - HMPREF1078_RS09710 0.58 -1.2
539,972 - HMPREF1078_RS09710 0.68 -1.7
540,006 - HMPREF1078_RS09710 0.70 +0.9
540,106 - HMPREF1078_RS09710 0.78 -0.7
540,171 - HMPREF1078_RS09710 0.83 -2.4
540,253 - HMPREF1078_RS09710 0.89 +2.2
540,272 + -0.1
540,273 - -0.9
540,273 - +0.9
540,337 + -1.1
540,338 - -2.4
540,343 - -0.1
540,403 + +0.9
540,404 - +1.9
540,410 - +0.9
540,410 - -1.4
540,457 + +0.9
540,458 - +0.9
540,480 - -0.7
540,540 + HMPREF1078_RS09715 0.16 +0.9
540,546 - HMPREF1078_RS09715 0.17 -1.7
540,748 + HMPREF1078_RS09715 0.41 +0.9
540,749 - HMPREF1078_RS09715 0.42 -1.1
540,761 + HMPREF1078_RS09715 0.43 -0.7
540,762 - HMPREF1078_RS09715 0.43 +0.9
540,762 - HMPREF1078_RS09715 0.43 -2.1
540,821 + HMPREF1078_RS09715 0.50 -2.2
540,867 - HMPREF1078_RS09715 0.56 +0.9
541,039 - HMPREF1078_RS09715 0.77 +0.9
541,054 - HMPREF1078_RS09715 0.78 -0.7
541,202 + +0.9
541,243 - -1.9
541,268 - -1.5
541,338 + +0.9
541,339 - +0.1
541,339 - +0.1
541,396 - -0.1
541,403 - +0.6
541,415 + +0.3
541,416 - -0.1
541,474 - HMPREF1078_RS09720 0.10 +0.1
541,476 - HMPREF1078_RS09720 0.10 +0.9
541,476 - HMPREF1078_RS09720 0.10 -1.3
541,527 + HMPREF1078_RS09720 0.13 -1.2
541,528 - HMPREF1078_RS09720 0.13 -1.9
541,528 - HMPREF1078_RS09720 0.13 +0.6
541,528 - HMPREF1078_RS09720 0.13 +1.9
541,529 + HMPREF1078_RS09720 0.13 +1.3
541,529 + HMPREF1078_RS09720 0.13 +0.3
541,544 + HMPREF1078_RS09720 0.14 -1.1
541,552 - HMPREF1078_RS09720 0.14 +1.4
541,552 - HMPREF1078_RS09720 0.14 -1.2
541,572 + HMPREF1078_RS09720 0.16 +0.1
541,572 + HMPREF1078_RS09720 0.16 -1.1
541,598 + HMPREF1078_RS09720 0.17 +0.7
541,605 + HMPREF1078_RS09720 0.17 +0.5
541,606 - HMPREF1078_RS09720 0.17 -1.0
541,691 + HMPREF1078_RS09720 0.22 -0.1
541,692 - HMPREF1078_RS09720 0.22 +0.1
541,771 - HMPREF1078_RS09720 0.26 +0.0
541,771 - HMPREF1078_RS09720 0.26 +1.6
541,814 + HMPREF1078_RS09720 0.28 -1.9
541,824 + HMPREF1078_RS09720 0.29 -0.5
541,825 - HMPREF1078_RS09720 0.29 +0.7
541,825 - HMPREF1078_RS09720 0.29 -1.6
541,863 + HMPREF1078_RS09720 0.31 -0.3
541,863 + HMPREF1078_RS09720 0.31 +0.4
541,864 - HMPREF1078_RS09720 0.31 -2.1
541,864 - HMPREF1078_RS09720 0.31 +1.1
541,865 + HMPREF1078_RS09720 0.31 -4.9
541,865 + HMPREF1078_RS09720 0.31 +0.3
541,866 - HMPREF1078_RS09720 0.31 -0.1
541,887 + HMPREF1078_RS09720 0.32 +0.3
541,939 + HMPREF1078_RS09720 0.35 -1.8
541,940 - HMPREF1078_RS09720 0.35 +0.9
541,976 + HMPREF1078_RS09720 0.37 -0.9
541,977 - HMPREF1078_RS09720 0.37 +1.1
541,977 - HMPREF1078_RS09720 0.37 -0.3
541,983 + HMPREF1078_RS09720 0.37 +0.3
541,984 - HMPREF1078_RS09720 0.37 -0.6
542,020 + HMPREF1078_RS09720 0.39 -1.8
542,021 - HMPREF1078_RS09720 0.39 -1.2
542,106 + HMPREF1078_RS09720 0.44 +0.3
542,106 + HMPREF1078_RS09720 0.44 -1.1

Or see this region's nucleotide sequence