Strain Fitness in Parabacteroides merdae CL09T00C40 around HMPREF1078_RS05915

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_RS05910 and HMPREF1078_RS05915 are separated by 271 nucleotidesHMPREF1078_RS05915 and HMPREF1078_RS05920 are separated by 197 nucleotides HMPREF1078_RS05910: HMPREF1078_RS05910 - nucleoside kinase, at 514,426 to 516,093 _RS05910 HMPREF1078_RS05915: HMPREF1078_RS05915 - ATP-binding protein, at 516,365 to 518,527 _RS05915 HMPREF1078_RS05920: HMPREF1078_RS05920 - RNA polymerase factor sigma-54, at 518,725 to 520,194 _RS05920 Position (kb) 516 517 518 519Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3 4at 515.455 kb on + strand, within HMPREF1078_RS05910at 515.486 kb on + strand, within HMPREF1078_RS05910at 515.491 kb on + strand, within HMPREF1078_RS05910at 515.621 kb on + strand, within HMPREF1078_RS05910at 515.622 kb on - strand, within HMPREF1078_RS05910at 515.674 kb on + strand, within HMPREF1078_RS05910at 515.676 kb on + strand, within HMPREF1078_RS05910at 515.689 kb on + strand, within HMPREF1078_RS05910at 515.689 kb on + strand, within HMPREF1078_RS05910at 515.727 kb on + strand, within HMPREF1078_RS05910at 515.728 kb on - strand, within HMPREF1078_RS05910at 515.728 kb on - strand, within HMPREF1078_RS05910at 515.903 kb on + strand, within HMPREF1078_RS05910at 516.011 kb on - strandat 516.138 kb on + strandat 516.138 kb on + strandat 516.138 kb on + strandat 516.231 kb on + strandat 516.235 kb on + strandat 516.235 kb on + strandat 516.236 kb on - strandat 516.236 kb on - strandat 516.236 kb on - strandat 516.236 kb on - strandat 516.259 kb on - strandat 516.261 kb on + strandat 516.386 kb on - strandat 516.549 kb on - strandat 516.563 kb on - strandat 516.765 kb on - strand, within HMPREF1078_RS05915at 516.787 kb on + strand, within HMPREF1078_RS05915at 516.787 kb on + strand, within HMPREF1078_RS05915at 516.788 kb on - strand, within HMPREF1078_RS05915at 516.788 kb on - strand, within HMPREF1078_RS05915at 516.788 kb on - strand, within HMPREF1078_RS05915at 516.855 kb on - strand, within HMPREF1078_RS05915at 516.857 kb on - strand, within HMPREF1078_RS05915at 516.949 kb on + strand, within HMPREF1078_RS05915at 517.130 kb on - strand, within HMPREF1078_RS05915at 517.132 kb on + strand, within HMPREF1078_RS05915at 517.176 kb on + strand, within HMPREF1078_RS05915at 517.177 kb on - strand, within HMPREF1078_RS05915at 517.262 kb on + strand, within HMPREF1078_RS05915at 517.263 kb on - strand, within HMPREF1078_RS05915at 517.313 kb on + strand, within HMPREF1078_RS05915at 517.313 kb on + strand, within HMPREF1078_RS05915at 517.332 kb on + strand, within HMPREF1078_RS05915at 517.333 kb on - strand, within HMPREF1078_RS05915at 517.333 kb on - strand, within HMPREF1078_RS05915at 517.336 kb on + strand, within HMPREF1078_RS05915at 517.337 kb on - strand, within HMPREF1078_RS05915at 517.350 kb on + strand, within HMPREF1078_RS05915at 517.350 kb on + strand, within HMPREF1078_RS05915at 517.367 kb on - strand, within HMPREF1078_RS05915at 517.466 kb on + strand, within HMPREF1078_RS05915at 517.593 kb on + strand, within HMPREF1078_RS05915at 517.593 kb on + strand, within HMPREF1078_RS05915at 517.613 kb on - strand, within HMPREF1078_RS05915at 517.622 kb on - strand, within HMPREF1078_RS05915at 517.623 kb on + strand, within HMPREF1078_RS05915at 517.821 kb on + strand, within HMPREF1078_RS05915at 517.822 kb on - strand, within HMPREF1078_RS05915at 517.823 kb on + strand, within HMPREF1078_RS05915at 517.823 kb on + strand, within HMPREF1078_RS05915at 517.847 kb on - strand, within HMPREF1078_RS05915at 517.912 kb on - strand, within HMPREF1078_RS05915at 517.938 kb on - strand, within HMPREF1078_RS05915at 517.961 kb on - strand, within HMPREF1078_RS05915at 517.961 kb on - strand, within HMPREF1078_RS05915at 517.961 kb on - strand, within HMPREF1078_RS05915at 517.961 kb on - strand, within HMPREF1078_RS05915at 517.961 kb on - strand, within HMPREF1078_RS05915at 518.039 kb on - strand, within HMPREF1078_RS05915at 518.039 kb on - strand, within HMPREF1078_RS05915at 518.050 kb on + strand, within HMPREF1078_RS05915at 518.176 kb on + strand, within HMPREF1078_RS05915at 518.399 kb on - strandat 518.429 kb on - strandat 518.430 kb on + strandat 518.478 kb on - strandat 518.478 kb on - strandat 518.480 kb on + strandat 518.527 kb on + strandat 518.527 kb on + strandat 518.528 kb on - strandat 518.528 kb on - strandat 518.528 kb on - strandat 518.528 kb on - strandat 518.528 kb on - strandat 518.529 kb on + strandat 518.591 kb on + strandat 518.603 kb on - strandat 518.607 kb on + strandat 518.607 kb on + strandat 518.724 kb on + strandat 518.999 kb on + strand, within HMPREF1078_RS05920at 518.999 kb on + strand, within HMPREF1078_RS05920at 519.145 kb on + strand, within HMPREF1078_RS05920at 519.419 kb on - strand, within HMPREF1078_RS05920

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day3
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515,455 + HMPREF1078_RS05910 0.62 +1.0
515,486 + HMPREF1078_RS05910 0.64 +0.7
515,491 + HMPREF1078_RS05910 0.64 -2.1
515,621 + HMPREF1078_RS05910 0.72 +0.3
515,622 - HMPREF1078_RS05910 0.72 -2.6
515,674 + HMPREF1078_RS05910 0.75 -0.3
515,676 + HMPREF1078_RS05910 0.75 +2.4
515,689 + HMPREF1078_RS05910 0.76 +2.1
515,689 + HMPREF1078_RS05910 0.76 -1.2
515,727 + HMPREF1078_RS05910 0.78 -3.0
515,728 - HMPREF1078_RS05910 0.78 +2.2
515,728 - HMPREF1078_RS05910 0.78 -1.1
515,903 + HMPREF1078_RS05910 0.89 -1.1
516,011 - -2.2
516,138 + -2.0
516,138 + +0.2
516,138 + +2.0
516,231 + -0.2
516,235 + +0.1
516,235 + -1.9
516,236 - -0.8
516,236 - +2.4
516,236 - +2.0
516,236 - +0.4
516,259 - +1.9
516,261 + +0.4
516,386 - -2.9
516,549 - -1.0
516,563 - +1.7
516,765 - HMPREF1078_RS05915 0.18 +0.4
516,787 + HMPREF1078_RS05915 0.20 -0.8
516,787 + HMPREF1078_RS05915 0.20 -0.3
516,788 - HMPREF1078_RS05915 0.20 -0.2
516,788 - HMPREF1078_RS05915 0.20 +0.9
516,788 - HMPREF1078_RS05915 0.20 -1.4
516,855 - HMPREF1078_RS05915 0.23 +0.0
516,857 - HMPREF1078_RS05915 0.23 -0.1
516,949 + HMPREF1078_RS05915 0.27 -1.4
517,130 - HMPREF1078_RS05915 0.35 -0.4
517,132 + HMPREF1078_RS05915 0.35 -3.3
517,176 + HMPREF1078_RS05915 0.37 +1.3
517,177 - HMPREF1078_RS05915 0.38 -0.5
517,262 + HMPREF1078_RS05915 0.41 +0.7
517,263 - HMPREF1078_RS05915 0.42 -0.3
517,313 + HMPREF1078_RS05915 0.44 +1.2
517,313 + HMPREF1078_RS05915 0.44 -2.5
517,332 + HMPREF1078_RS05915 0.45 +0.4
517,333 - HMPREF1078_RS05915 0.45 -3.3
517,333 - HMPREF1078_RS05915 0.45 +0.3
517,336 + HMPREF1078_RS05915 0.45 +1.6
517,337 - HMPREF1078_RS05915 0.45 -0.6
517,350 + HMPREF1078_RS05915 0.46 -0.9
517,350 + HMPREF1078_RS05915 0.46 +1.1
517,367 - HMPREF1078_RS05915 0.46 +0.2
517,466 + HMPREF1078_RS05915 0.51 -0.9
517,593 + HMPREF1078_RS05915 0.57 +1.4
517,593 + HMPREF1078_RS05915 0.57 -1.7
517,613 - HMPREF1078_RS05915 0.58 -2.0
517,622 - HMPREF1078_RS05915 0.58 +4.0
517,623 + HMPREF1078_RS05915 0.58 +0.7
517,821 + HMPREF1078_RS05915 0.67 +1.3
517,822 - HMPREF1078_RS05915 0.67 -0.0
517,823 + HMPREF1078_RS05915 0.67 +0.4
517,823 + HMPREF1078_RS05915 0.67 -0.4
517,847 - HMPREF1078_RS05915 0.69 -1.6
517,912 - HMPREF1078_RS05915 0.72 -0.3
517,938 - HMPREF1078_RS05915 0.73 +0.1
517,961 - HMPREF1078_RS05915 0.74 +1.0
517,961 - HMPREF1078_RS05915 0.74 -0.6
517,961 - HMPREF1078_RS05915 0.74 +1.1
517,961 - HMPREF1078_RS05915 0.74 -1.3
517,961 - HMPREF1078_RS05915 0.74 -2.3
518,039 - HMPREF1078_RS05915 0.77 +0.7
518,039 - HMPREF1078_RS05915 0.77 -0.7
518,050 + HMPREF1078_RS05915 0.78 -0.1
518,176 + HMPREF1078_RS05915 0.84 -2.9
518,399 - +0.4
518,429 - +0.7
518,430 + -1.1
518,478 - +0.8
518,478 - +2.1
518,480 + +0.1
518,527 + +2.6
518,527 + -2.8
518,528 - +0.3
518,528 - +0.8
518,528 - +0.6
518,528 - +2.8
518,528 - +0.7
518,529 + +0.0
518,591 + -2.1
518,603 - +1.5
518,607 + -1.8
518,607 + -1.1
518,724 + +0.5
518,999 + HMPREF1078_RS05920 0.19 -0.3
518,999 + HMPREF1078_RS05920 0.19 -1.7
519,145 + HMPREF1078_RS05920 0.29 -0.8
519,419 - HMPREF1078_RS05920 0.47 -0.8

Or see this region's nucleotide sequence