Strain Fitness in Parabacteroides merdae CL09T00C40 around HMPREF1078_RS15855

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse20; day5

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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_RS15845 and HMPREF1078_RS15850 are separated by 75 nucleotidesHMPREF1078_RS15850 and HMPREF1078_RS15855 overlap by 4 nucleotidesHMPREF1078_RS15855 and HMPREF1078_RS15860 are separated by 14 nucleotidesHMPREF1078_RS15860 and HMPREF1078_RS15865 are separated by 2 nucleotides HMPREF1078_RS15845: HMPREF1078_RS15845 - copper homeostasis protein CutC, at 284,531 to 285,268 _RS15845 HMPREF1078_RS15850: HMPREF1078_RS15850 - PspC domain-containing protein, at 285,344 to 285,547 _RS15850 HMPREF1078_RS15855: HMPREF1078_RS15855 - excinuclease ABC subunit UvrB, at 285,544 to 287,571 _RS15855 HMPREF1078_RS15860: HMPREF1078_RS15860 - DUF1460 domain-containing protein, at 287,586 to 288,416 _RS15860 HMPREF1078_RS15865: HMPREF1078_RS15865 - DUF5686 family protein, at 288,419 to 290,599 _RS15865 Position (kb) 285 286 287 288Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 284.545 kb on + strandat 284.545 kb on + strandat 284.546 kb on - strandat 284.546 kb on - strandat 284.546 kb on - strandat 284.657 kb on + strand, within HMPREF1078_RS15845at 284.701 kb on + strand, within HMPREF1078_RS15845at 284.701 kb on + strand, within HMPREF1078_RS15845at 284.703 kb on + strand, within HMPREF1078_RS15845at 284.704 kb on - strand, within HMPREF1078_RS15845at 284.704 kb on - strand, within HMPREF1078_RS15845at 284.743 kb on + strand, within HMPREF1078_RS15845at 284.744 kb on - strand, within HMPREF1078_RS15845at 284.811 kb on + strand, within HMPREF1078_RS15845at 284.812 kb on - strand, within HMPREF1078_RS15845at 285.136 kb on + strand, within HMPREF1078_RS15845at 285.136 kb on + strand, within HMPREF1078_RS15845at 285.137 kb on - strand, within HMPREF1078_RS15845at 285.137 kb on - strand, within HMPREF1078_RS15845at 285.174 kb on - strand, within HMPREF1078_RS15845at 285.266 kb on + strandat 285.280 kb on + strandat 285.355 kb on + strandat 285.356 kb on - strandat 285.356 kb on - strandat 285.387 kb on + strand, within HMPREF1078_RS15850at 285.434 kb on - strand, within HMPREF1078_RS15850at 285.438 kb on + strand, within HMPREF1078_RS15850at 285.438 kb on + strand, within HMPREF1078_RS15850at 285.452 kb on + strand, within HMPREF1078_RS15850at 285.452 kb on + strand, within HMPREF1078_RS15850at 285.454 kb on + strand, within HMPREF1078_RS15850at 285.454 kb on + strand, within HMPREF1078_RS15850at 285.456 kb on + strand, within HMPREF1078_RS15850at 285.456 kb on + strand, within HMPREF1078_RS15850at 285.456 kb on + strand, within HMPREF1078_RS15850at 285.456 kb on + strand, within HMPREF1078_RS15850at 285.456 kb on + strand, within HMPREF1078_RS15850at 285.456 kb on + strand, within HMPREF1078_RS15850at 285.456 kb on + strand, within HMPREF1078_RS15850at 285.456 kb on + strand, within HMPREF1078_RS15850at 285.457 kb on - strand, within HMPREF1078_RS15850at 285.457 kb on - strand, within HMPREF1078_RS15850at 285.457 kb on - strand, within HMPREF1078_RS15850at 285.457 kb on - strand, within HMPREF1078_RS15850at 285.457 kb on - strand, within HMPREF1078_RS15850at 285.457 kb on - strand, within HMPREF1078_RS15850at 285.459 kb on + strand, within HMPREF1078_RS15850at 285.460 kb on - strand, within HMPREF1078_RS15850at 285.466 kb on + strand, within HMPREF1078_RS15850at 285.466 kb on + strand, within HMPREF1078_RS15850at 285.497 kb on + strand, within HMPREF1078_RS15850at 285.518 kb on - strand, within HMPREF1078_RS15850at 285.519 kb on + strand, within HMPREF1078_RS15850at 285.519 kb on + strand, within HMPREF1078_RS15850at 285.520 kb on - strand, within HMPREF1078_RS15850at 285.520 kb on - strand, within HMPREF1078_RS15850at 285.520 kb on - strand, within HMPREF1078_RS15850at 285.523 kb on + strand, within HMPREF1078_RS15850at 285.533 kb on - strandat 285.533 kb on - strandat 285.539 kb on - strandat 285.539 kb on - strandat 285.557 kb on + strandat 285.557 kb on + strandat 285.732 kb on + strandat 285.755 kb on + strand, within HMPREF1078_RS15855at 285.756 kb on - strand, within HMPREF1078_RS15855at 285.756 kb on - strand, within HMPREF1078_RS15855at 285.758 kb on - strand, within HMPREF1078_RS15855at 285.800 kb on - strand, within HMPREF1078_RS15855at 285.811 kb on + strand, within HMPREF1078_RS15855at 285.812 kb on - strand, within HMPREF1078_RS15855at 285.820 kb on + strand, within HMPREF1078_RS15855at 285.821 kb on - strand, within HMPREF1078_RS15855at 285.823 kb on + strand, within HMPREF1078_RS15855at 285.859 kb on + strand, within HMPREF1078_RS15855at 285.859 kb on + strand, within HMPREF1078_RS15855at 285.902 kb on + strand, within HMPREF1078_RS15855at 285.977 kb on - strand, within HMPREF1078_RS15855at 285.977 kb on - strand, within HMPREF1078_RS15855at 285.977 kb on - strand, within HMPREF1078_RS15855at 285.982 kb on - strand, within HMPREF1078_RS15855at 286.093 kb on - strand, within HMPREF1078_RS15855at 286.098 kb on - strand, within HMPREF1078_RS15855at 286.185 kb on + strand, within HMPREF1078_RS15855at 286.311 kb on + strand, within HMPREF1078_RS15855at 286.406 kb on - strand, within HMPREF1078_RS15855at 286.406 kb on - strand, within HMPREF1078_RS15855at 286.437 kb on - strand, within HMPREF1078_RS15855at 286.462 kb on - strand, within HMPREF1078_RS15855at 286.471 kb on + strand, within HMPREF1078_RS15855at 286.472 kb on - strand, within HMPREF1078_RS15855at 286.587 kb on - strand, within HMPREF1078_RS15855at 286.597 kb on + strand, within HMPREF1078_RS15855at 286.598 kb on - strand, within HMPREF1078_RS15855at 286.636 kb on + strand, within HMPREF1078_RS15855at 286.939 kb on + strand, within HMPREF1078_RS15855at 286.940 kb on - strand, within HMPREF1078_RS15855at 286.971 kb on + strand, within HMPREF1078_RS15855at 286.989 kb on + strand, within HMPREF1078_RS15855at 286.997 kb on + strand, within HMPREF1078_RS15855at 287.198 kb on + strand, within HMPREF1078_RS15855at 287.198 kb on + strand, within HMPREF1078_RS15855at 287.199 kb on - strand, within HMPREF1078_RS15855at 287.204 kb on - strand, within HMPREF1078_RS15855at 287.216 kb on + strand, within HMPREF1078_RS15855at 287.256 kb on + strand, within HMPREF1078_RS15855at 287.358 kb on + strand, within HMPREF1078_RS15855at 287.371 kb on + strandat 287.377 kb on + strandat 287.378 kb on - strandat 287.378 kb on - strandat 287.378 kb on - strandat 287.378 kb on - strandat 287.424 kb on + strandat 287.425 kb on - strandat 287.425 kb on - strandat 287.502 kb on + strandat 287.503 kb on - strandat 287.654 kb on + strandat 287.661 kb on - strandat 287.673 kb on + strand, within HMPREF1078_RS15860at 287.674 kb on - strand, within HMPREF1078_RS15860at 287.678 kb on + strand, within HMPREF1078_RS15860at 287.757 kb on + strand, within HMPREF1078_RS15860at 287.761 kb on + strand, within HMPREF1078_RS15860at 287.840 kb on + strand, within HMPREF1078_RS15860at 287.881 kb on - strand, within HMPREF1078_RS15860at 287.889 kb on + strand, within HMPREF1078_RS15860at 287.890 kb on - strand, within HMPREF1078_RS15860at 287.890 kb on - strand, within HMPREF1078_RS15860at 287.890 kb on - strand, within HMPREF1078_RS15860at 287.890 kb on - strand, within HMPREF1078_RS15860at 287.909 kb on + strand, within HMPREF1078_RS15860at 287.909 kb on + strand, within HMPREF1078_RS15860at 287.966 kb on + strand, within HMPREF1078_RS15860at 287.966 kb on + strand, within HMPREF1078_RS15860at 287.966 kb on + strand, within HMPREF1078_RS15860at 287.967 kb on - strand, within HMPREF1078_RS15860at 287.982 kb on + strand, within HMPREF1078_RS15860at 287.982 kb on + strand, within HMPREF1078_RS15860at 287.983 kb on - strand, within HMPREF1078_RS15860at 287.983 kb on - strand, within HMPREF1078_RS15860at 288.003 kb on + strand, within HMPREF1078_RS15860at 288.013 kb on - strand, within HMPREF1078_RS15860at 288.017 kb on + strand, within HMPREF1078_RS15860at 288.062 kb on + strand, within HMPREF1078_RS15860at 288.069 kb on + strand, within HMPREF1078_RS15860at 288.080 kb on + strand, within HMPREF1078_RS15860at 288.085 kb on - strand, within HMPREF1078_RS15860at 288.085 kb on - strand, within HMPREF1078_RS15860at 288.085 kb on - strand, within HMPREF1078_RS15860at 288.113 kb on + strand, within HMPREF1078_RS15860at 288.113 kb on + strand, within HMPREF1078_RS15860at 288.122 kb on - strand, within HMPREF1078_RS15860at 288.162 kb on + strand, within HMPREF1078_RS15860at 288.165 kb on + strand, within HMPREF1078_RS15860at 288.254 kb on + strand, within HMPREF1078_RS15860at 288.255 kb on - strand, within HMPREF1078_RS15860at 288.291 kb on - strand, within HMPREF1078_RS15860at 288.296 kb on + strand, within HMPREF1078_RS15860at 288.296 kb on + strand, within HMPREF1078_RS15860at 288.302 kb on + strand, within HMPREF1078_RS15860at 288.360 kb on + strandat 288.392 kb on + strandat 288.393 kb on - strandat 288.420 kb on + strandat 288.472 kb on + strandat 288.472 kb on + strandat 288.505 kb on + strandat 288.506 kb on - strandat 288.506 kb on - strandat 288.506 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse20; day5
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284,545 + -2.6
284,545 + -2.7
284,546 - -1.1
284,546 - -3.2
284,546 - -2.5
284,657 + HMPREF1078_RS15845 0.17 -0.1
284,701 + HMPREF1078_RS15845 0.23 -0.7
284,701 + HMPREF1078_RS15845 0.23 -1.4
284,703 + HMPREF1078_RS15845 0.23 -2.2
284,704 - HMPREF1078_RS15845 0.23 -3.4
284,704 - HMPREF1078_RS15845 0.23 -1.8
284,743 + HMPREF1078_RS15845 0.29 -1.3
284,744 - HMPREF1078_RS15845 0.29 +0.9
284,811 + HMPREF1078_RS15845 0.38 +2.6
284,812 - HMPREF1078_RS15845 0.38 -2.5
285,136 + HMPREF1078_RS15845 0.82 -1.1
285,136 + HMPREF1078_RS15845 0.82 -1.8
285,137 - HMPREF1078_RS15845 0.82 -3.2
285,137 - HMPREF1078_RS15845 0.82 -0.9
285,174 - HMPREF1078_RS15845 0.87 -3.3
285,266 + +0.9
285,280 + -0.7
285,355 + -1.1
285,356 - +0.3
285,356 - -0.4
285,387 + HMPREF1078_RS15850 0.21 -0.8
285,434 - HMPREF1078_RS15850 0.44 +1.9
285,438 + HMPREF1078_RS15850 0.46 -0.0
285,438 + HMPREF1078_RS15850 0.46 +1.0
285,452 + HMPREF1078_RS15850 0.53 +0.7
285,452 + HMPREF1078_RS15850 0.53 -2.0
285,454 + HMPREF1078_RS15850 0.54 +0.9
285,454 + HMPREF1078_RS15850 0.54 -0.3
285,456 + HMPREF1078_RS15850 0.55 +0.6
285,456 + HMPREF1078_RS15850 0.55 -2.5
285,456 + HMPREF1078_RS15850 0.55 -1.4
285,456 + HMPREF1078_RS15850 0.55 +0.9
285,456 + HMPREF1078_RS15850 0.55 -0.0
285,456 + HMPREF1078_RS15850 0.55 -0.5
285,456 + HMPREF1078_RS15850 0.55 -0.7
285,456 + HMPREF1078_RS15850 0.55 -0.3
285,457 - HMPREF1078_RS15850 0.55 +1.9
285,457 - HMPREF1078_RS15850 0.55 +1.2
285,457 - HMPREF1078_RS15850 0.55 +0.1
285,457 - HMPREF1078_RS15850 0.55 +0.3
285,457 - HMPREF1078_RS15850 0.55 +0.7
285,457 - HMPREF1078_RS15850 0.55 +2.6
285,459 + HMPREF1078_RS15850 0.56 -0.4
285,460 - HMPREF1078_RS15850 0.57 +1.3
285,466 + HMPREF1078_RS15850 0.60 -0.8
285,466 + HMPREF1078_RS15850 0.60 +2.1
285,497 + HMPREF1078_RS15850 0.75 +0.2
285,518 - HMPREF1078_RS15850 0.85 +1.1
285,519 + HMPREF1078_RS15850 0.86 -1.1
285,519 + HMPREF1078_RS15850 0.86 +1.1
285,520 - HMPREF1078_RS15850 0.86 +0.4
285,520 - HMPREF1078_RS15850 0.86 -0.7
285,520 - HMPREF1078_RS15850 0.86 +1.3
285,523 + HMPREF1078_RS15850 0.88 +0.7
285,533 - -0.1
285,533 - +0.9
285,539 - -0.1
285,539 - -1.9
285,557 + -0.8
285,557 + -2.1
285,732 + -2.0
285,755 + HMPREF1078_RS15855 0.10 -0.4
285,756 - HMPREF1078_RS15855 0.10 -0.4
285,756 - HMPREF1078_RS15855 0.10 -1.2
285,758 - HMPREF1078_RS15855 0.11 -1.0
285,800 - HMPREF1078_RS15855 0.13 -0.7
285,811 + HMPREF1078_RS15855 0.13 +0.3
285,812 - HMPREF1078_RS15855 0.13 -2.3
285,820 + HMPREF1078_RS15855 0.14 -0.9
285,821 - HMPREF1078_RS15855 0.14 -1.9
285,823 + HMPREF1078_RS15855 0.14 -0.9
285,859 + HMPREF1078_RS15855 0.16 -2.7
285,859 + HMPREF1078_RS15855 0.16 +0.3
285,902 + HMPREF1078_RS15855 0.18 +0.1
285,977 - HMPREF1078_RS15855 0.21 -2.6
285,977 - HMPREF1078_RS15855 0.21 -0.1
285,977 - HMPREF1078_RS15855 0.21 -1.7
285,982 - HMPREF1078_RS15855 0.22 -1.7
286,093 - HMPREF1078_RS15855 0.27 +1.0
286,098 - HMPREF1078_RS15855 0.27 -1.3
286,185 + HMPREF1078_RS15855 0.32 +0.4
286,311 + HMPREF1078_RS15855 0.38 -0.7
286,406 - HMPREF1078_RS15855 0.43 +0.6
286,406 - HMPREF1078_RS15855 0.43 +0.7
286,437 - HMPREF1078_RS15855 0.44 -0.4
286,462 - HMPREF1078_RS15855 0.45 -0.4
286,471 + HMPREF1078_RS15855 0.46 -0.9
286,472 - HMPREF1078_RS15855 0.46 -0.6
286,587 - HMPREF1078_RS15855 0.51 -1.8
286,597 + HMPREF1078_RS15855 0.52 +1.9
286,598 - HMPREF1078_RS15855 0.52 -0.4
286,636 + HMPREF1078_RS15855 0.54 -1.1
286,939 + HMPREF1078_RS15855 0.69 -1.8
286,940 - HMPREF1078_RS15855 0.69 -1.6
286,971 + HMPREF1078_RS15855 0.70 -1.1
286,989 + HMPREF1078_RS15855 0.71 +0.3
286,997 + HMPREF1078_RS15855 0.72 +0.6
287,198 + HMPREF1078_RS15855 0.82 -1.0
287,198 + HMPREF1078_RS15855 0.82 -1.2
287,199 - HMPREF1078_RS15855 0.82 -0.3
287,204 - HMPREF1078_RS15855 0.82 +1.1
287,216 + HMPREF1078_RS15855 0.82 -1.4
287,256 + HMPREF1078_RS15855 0.84 -1.6
287,358 + HMPREF1078_RS15855 0.89 -0.9
287,371 + -0.8
287,377 + -0.4
287,378 - +1.9
287,378 - -1.3
287,378 - -0.8
287,378 - -0.0
287,424 + -0.2
287,425 - +0.0
287,425 - +0.9
287,502 + +0.3
287,503 - +0.3
287,654 + -0.2
287,661 - +0.9
287,673 + HMPREF1078_RS15860 0.10 -1.4
287,674 - HMPREF1078_RS15860 0.11 +0.1
287,678 + HMPREF1078_RS15860 0.11 +0.0
287,757 + HMPREF1078_RS15860 0.21 -0.3
287,761 + HMPREF1078_RS15860 0.21 +1.9
287,840 + HMPREF1078_RS15860 0.31 +0.3
287,881 - HMPREF1078_RS15860 0.35 +0.9
287,889 + HMPREF1078_RS15860 0.36 +0.4
287,890 - HMPREF1078_RS15860 0.37 +0.4
287,890 - HMPREF1078_RS15860 0.37 -2.1
287,890 - HMPREF1078_RS15860 0.37 +0.3
287,890 - HMPREF1078_RS15860 0.37 +0.9
287,909 + HMPREF1078_RS15860 0.39 +1.1
287,909 + HMPREF1078_RS15860 0.39 +0.3
287,966 + HMPREF1078_RS15860 0.46 +0.3
287,966 + HMPREF1078_RS15860 0.46 -0.1
287,966 + HMPREF1078_RS15860 0.46 +0.6
287,967 - HMPREF1078_RS15860 0.46 +1.9
287,982 + HMPREF1078_RS15860 0.48 +0.8
287,982 + HMPREF1078_RS15860 0.48 +1.0
287,983 - HMPREF1078_RS15860 0.48 +3.5
287,983 - HMPREF1078_RS15860 0.48 -0.0
288,003 + HMPREF1078_RS15860 0.50 -2.4
288,013 - HMPREF1078_RS15860 0.51 +0.3
288,017 + HMPREF1078_RS15860 0.52 -0.2
288,062 + HMPREF1078_RS15860 0.57 -0.3
288,069 + HMPREF1078_RS15860 0.58 +0.1
288,080 + HMPREF1078_RS15860 0.59 +1.9
288,085 - HMPREF1078_RS15860 0.60 +0.9
288,085 - HMPREF1078_RS15860 0.60 +1.7
288,085 - HMPREF1078_RS15860 0.60 +2.3
288,113 + HMPREF1078_RS15860 0.63 -1.6
288,113 + HMPREF1078_RS15860 0.63 -1.7
288,122 - HMPREF1078_RS15860 0.65 +0.6
288,162 + HMPREF1078_RS15860 0.69 -0.3
288,165 + HMPREF1078_RS15860 0.70 +0.4
288,254 + HMPREF1078_RS15860 0.80 -2.5
288,255 - HMPREF1078_RS15860 0.81 +1.3
288,291 - HMPREF1078_RS15860 0.85 -0.6
288,296 + HMPREF1078_RS15860 0.85 +1.1
288,296 + HMPREF1078_RS15860 0.85 +0.1
288,302 + HMPREF1078_RS15860 0.86 -2.8
288,360 + +0.1
288,392 + -2.5
288,393 - +0.0
288,420 + +0.9
288,472 + -0.1
288,472 + -1.1
288,505 + -1.4
288,506 - -2.0
288,506 - -1.3
288,506 - -2.0

Or see this region's nucleotide sequence