Strain Fitness in Parabacteroides merdae CL09T00C40 around HMPREF1078_RS08835

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse19; 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_RS08830 and HMPREF1078_RS08835 are separated by 44 nucleotidesHMPREF1078_RS08835 and HMPREF1078_RS19875 are separated by 177 nucleotidesHMPREF1078_RS19875 and HMPREF1078_RS19880 overlap by 25 nucleotides HMPREF1078_RS08830: HMPREF1078_RS08830 - site-specific integrase, at 351,205 to 352,419 _RS08830 HMPREF1078_RS08835: HMPREF1078_RS08835 - virulence RhuM family protein, at 352,464 to 352,877 _RS08835 HMPREF1078_RS19875: HMPREF1078_RS19875 - hypothetical protein, at 353,055 to 353,480 _RS19875 HMPREF1078_RS19880: HMPREF1078_RS19880 - hypothetical protein, at 353,456 to 353,995 _RS19880 Position (kb) 352 353Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 351.491 kb on + strand, within HMPREF1078_RS08830at 351.658 kb on + strand, within HMPREF1078_RS08830at 351.663 kb on + strand, within HMPREF1078_RS08830at 351.672 kb on + strand, within HMPREF1078_RS08830at 351.673 kb on - strand, within HMPREF1078_RS08830at 351.674 kb on + strand, within HMPREF1078_RS08830at 351.674 kb on + strand, within HMPREF1078_RS08830at 351.674 kb on + strand, within HMPREF1078_RS08830at 351.675 kb on - strand, within HMPREF1078_RS08830at 351.685 kb on + strand, within HMPREF1078_RS08830at 351.697 kb on - strand, within HMPREF1078_RS08830at 351.697 kb on - strand, within HMPREF1078_RS08830at 351.697 kb on - strand, within HMPREF1078_RS08830at 351.697 kb on - strand, within HMPREF1078_RS08830at 351.722 kb on - strand, within HMPREF1078_RS08830at 351.722 kb on - strand, within HMPREF1078_RS08830at 351.722 kb on - strand, within HMPREF1078_RS08830at 351.753 kb on + strand, within HMPREF1078_RS08830at 351.754 kb on - strand, within HMPREF1078_RS08830at 351.754 kb on - strand, within HMPREF1078_RS08830at 351.791 kb on + strand, within HMPREF1078_RS08830at 351.822 kb on + strand, within HMPREF1078_RS08830at 351.822 kb on + strand, within HMPREF1078_RS08830at 351.823 kb on - strand, within HMPREF1078_RS08830at 351.900 kb on + strand, within HMPREF1078_RS08830at 351.902 kb on + strand, within HMPREF1078_RS08830at 351.941 kb on + strand, within HMPREF1078_RS08830at 351.977 kb on + strand, within HMPREF1078_RS08830at 351.977 kb on + strand, within HMPREF1078_RS08830at 351.977 kb on + strand, within HMPREF1078_RS08830at 351.978 kb on - strand, within HMPREF1078_RS08830at 351.983 kb on - strand, within HMPREF1078_RS08830at 351.983 kb on - strand, within HMPREF1078_RS08830at 351.983 kb on - strand, within HMPREF1078_RS08830at 351.983 kb on - strand, within HMPREF1078_RS08830at 351.983 kb on - strand, within HMPREF1078_RS08830at 352.063 kb on - strand, within HMPREF1078_RS08830at 352.071 kb on + strand, within HMPREF1078_RS08830at 352.071 kb on + strand, within HMPREF1078_RS08830at 352.072 kb on - strand, within HMPREF1078_RS08830at 352.124 kb on - strand, within HMPREF1078_RS08830at 352.180 kb on - strand, within HMPREF1078_RS08830at 352.191 kb on - strand, within HMPREF1078_RS08830at 352.216 kb on - strand, within HMPREF1078_RS08830at 352.216 kb on - strand, within HMPREF1078_RS08830at 352.217 kb on + strand, within HMPREF1078_RS08830at 352.217 kb on + strand, within HMPREF1078_RS08830at 352.218 kb on - strand, within HMPREF1078_RS08830at 352.218 kb on - strand, within HMPREF1078_RS08830at 352.230 kb on + strand, within HMPREF1078_RS08830at 352.230 kb on + strand, within HMPREF1078_RS08830at 352.230 kb on + strand, within HMPREF1078_RS08830at 352.269 kb on + strand, within HMPREF1078_RS08830at 352.320 kb on + strandat 352.320 kb on + strandat 352.321 kb on - strandat 352.346 kb on - strandat 352.346 kb on - strandat 352.370 kb on + strandat 352.415 kb on + strandat 352.415 kb on + strandat 352.439 kb on + strandat 352.439 kb on + strandat 352.439 kb on + strandat 352.440 kb on - strandat 352.440 kb on - strandat 352.441 kb on + strandat 352.441 kb on + strandat 352.441 kb on + strandat 352.441 kb on + strandat 352.441 kb on + strandat 352.441 kb on + strandat 352.441 kb on + strandat 352.442 kb on - strandat 352.442 kb on - strandat 352.442 kb on - strandat 352.443 kb on + strandat 352.443 kb on + strandat 352.443 kb on + strandat 352.443 kb on + strandat 352.443 kb on - strandat 352.444 kb on - strandat 352.444 kb on - strandat 352.444 kb on - strandat 352.444 kb on - strandat 352.444 kb on - strandat 352.444 kb on - strandat 352.449 kb on - strandat 352.449 kb on - strandat 352.450 kb on + strandat 352.450 kb on + strandat 352.460 kb on + strandat 352.460 kb on + strandat 352.463 kb on + strandat 352.464 kb on - strandat 352.514 kb on + strand, within HMPREF1078_RS08835at 352.515 kb on - strand, within HMPREF1078_RS08835at 352.555 kb on + strand, within HMPREF1078_RS08835at 352.555 kb on + strand, within HMPREF1078_RS08835at 352.555 kb on + strand, within HMPREF1078_RS08835at 352.555 kb on + strand, within HMPREF1078_RS08835at 352.556 kb on - strand, within HMPREF1078_RS08835at 352.556 kb on - strand, within HMPREF1078_RS08835at 352.587 kb on + strand, within HMPREF1078_RS08835at 352.587 kb on + strand, within HMPREF1078_RS08835at 352.600 kb on + strand, within HMPREF1078_RS08835at 352.601 kb on - strand, within HMPREF1078_RS08835at 352.686 kb on + strand, within HMPREF1078_RS08835at 352.686 kb on + strand, within HMPREF1078_RS08835at 352.687 kb on - strand, within HMPREF1078_RS08835at 352.687 kb on - strand, within HMPREF1078_RS08835at 352.716 kb on + strand, within HMPREF1078_RS08835at 352.751 kb on + strand, within HMPREF1078_RS08835at 352.900 kb on + strandat 352.900 kb on + strandat 352.900 kb on + strandat 352.900 kb on + strandat 352.900 kb on + strandat 352.901 kb on - strandat 352.901 kb on - strandat 352.901 kb on - strandat 352.901 kb on - strandat 353.004 kb on + strandat 353.005 kb on - strandat 353.027 kb on + strandat 353.054 kb on + strandat 353.142 kb on + strand, within HMPREF1078_RS19875at 353.191 kb on + strand, within HMPREF1078_RS19875at 353.217 kb on + strand, within HMPREF1078_RS19875at 353.217 kb on + strand, within HMPREF1078_RS19875at 353.217 kb on + strand, within HMPREF1078_RS19875at 353.218 kb on - strand, within HMPREF1078_RS19875at 353.274 kb on + strand, within HMPREF1078_RS19875at 353.274 kb on + strand, within HMPREF1078_RS19875at 353.274 kb on + strand, within HMPREF1078_RS19875at 353.274 kb on + strand, within HMPREF1078_RS19875at 353.275 kb on - strand, within HMPREF1078_RS19875at 353.275 kb on - strand, within HMPREF1078_RS19875at 353.275 kb on - strand, within HMPREF1078_RS19875at 353.318 kb on + strand, within HMPREF1078_RS19875at 353.412 kb on - strand, within HMPREF1078_RS19875at 353.442 kb on - strandat 353.476 kb on + strandat 353.479 kb on - strandat 353.498 kb on + strandat 353.510 kb on + strand, within HMPREF1078_RS19880at 353.510 kb on + strand, within HMPREF1078_RS19880at 353.510 kb on + strand, within HMPREF1078_RS19880at 353.510 kb on + strand, within HMPREF1078_RS19880at 353.511 kb on - strand, within HMPREF1078_RS19880at 353.511 kb on - strand, within HMPREF1078_RS19880at 353.511 kb on - strand, within HMPREF1078_RS19880at 353.569 kb on - strand, within HMPREF1078_RS19880at 353.578 kb on + strand, within HMPREF1078_RS19880at 353.578 kb on + strand, within HMPREF1078_RS19880at 353.676 kb on + strand, within HMPREF1078_RS19880at 353.676 kb on + strand, within HMPREF1078_RS19880at 353.676 kb on + strand, within HMPREF1078_RS19880at 353.676 kb on + strand, within HMPREF1078_RS19880at 353.677 kb on - strand, within HMPREF1078_RS19880at 353.677 kb on - strand, within HMPREF1078_RS19880at 353.677 kb on - strand, within HMPREF1078_RS19880at 353.680 kb on + strand, within HMPREF1078_RS19880at 353.681 kb on - strand, within HMPREF1078_RS19880at 353.681 kb on - strand, within HMPREF1078_RS19880at 353.681 kb on - strand, within HMPREF1078_RS19880at 353.681 kb on - strand, within HMPREF1078_RS19880at 353.727 kb on + strand, within HMPREF1078_RS19880at 353.732 kb on + strand, within HMPREF1078_RS19880at 353.732 kb on + strand, within HMPREF1078_RS19880at 353.732 kb on + strand, within HMPREF1078_RS19880at 353.732 kb on + strand, within HMPREF1078_RS19880at 353.732 kb on + strand, within HMPREF1078_RS19880at 353.732 kb on + strand, within HMPREF1078_RS19880at 353.732 kb on + strand, within HMPREF1078_RS19880at 353.732 kb on + strand, within HMPREF1078_RS19880at 353.733 kb on - strand, within HMPREF1078_RS19880at 353.733 kb on - strand, within HMPREF1078_RS19880at 353.733 kb on - strand, within HMPREF1078_RS19880at 353.735 kb on + strand, within HMPREF1078_RS19880at 353.736 kb on - strand, within HMPREF1078_RS19880at 353.736 kb on - strand, within HMPREF1078_RS19880at 353.824 kb on + strand, within HMPREF1078_RS19880at 353.825 kb on - strand, within HMPREF1078_RS19880at 353.833 kb on - strand, within HMPREF1078_RS19880at 353.861 kb on + strand, within HMPREF1078_RS19880at 353.861 kb on + strand, within HMPREF1078_RS19880at 353.861 kb on + strand, within HMPREF1078_RS19880at 353.862 kb on - strand, within HMPREF1078_RS19880at 353.863 kb on + strand, within HMPREF1078_RS19880at 353.864 kb on - strand, within HMPREF1078_RS19880

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse19; day4
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351,491 + HMPREF1078_RS08830 0.24 +0.3
351,658 + HMPREF1078_RS08830 0.37 -0.2
351,663 + HMPREF1078_RS08830 0.38 -1.1
351,672 + HMPREF1078_RS08830 0.38 -2.0
351,673 - HMPREF1078_RS08830 0.39 -1.3
351,674 + HMPREF1078_RS08830 0.39 -1.8
351,674 + HMPREF1078_RS08830 0.39 +0.3
351,674 + HMPREF1078_RS08830 0.39 -0.5
351,675 - HMPREF1078_RS08830 0.39 +0.8
351,685 + HMPREF1078_RS08830 0.40 -0.1
351,697 - HMPREF1078_RS08830 0.40 +0.5
351,697 - HMPREF1078_RS08830 0.40 +0.4
351,697 - HMPREF1078_RS08830 0.40 -2.2
351,697 - HMPREF1078_RS08830 0.40 -0.8
351,722 - HMPREF1078_RS08830 0.43 -0.3
351,722 - HMPREF1078_RS08830 0.43 +0.8
351,722 - HMPREF1078_RS08830 0.43 +0.8
351,753 + HMPREF1078_RS08830 0.45 -1.0
351,754 - HMPREF1078_RS08830 0.45 +0.5
351,754 - HMPREF1078_RS08830 0.45 +0.8
351,791 + HMPREF1078_RS08830 0.48 -1.3
351,822 + HMPREF1078_RS08830 0.51 +0.8
351,822 + HMPREF1078_RS08830 0.51 -0.8
351,823 - HMPREF1078_RS08830 0.51 +0.2
351,900 + HMPREF1078_RS08830 0.57 -0.2
351,902 + HMPREF1078_RS08830 0.57 -0.2
351,941 + HMPREF1078_RS08830 0.61 +0.1
351,977 + HMPREF1078_RS08830 0.64 +0.4
351,977 + HMPREF1078_RS08830 0.64 -2.2
351,977 + HMPREF1078_RS08830 0.64 -2.1
351,978 - HMPREF1078_RS08830 0.64 -0.2
351,983 - HMPREF1078_RS08830 0.64 +1.8
351,983 - HMPREF1078_RS08830 0.64 -1.3
351,983 - HMPREF1078_RS08830 0.64 +0.8
351,983 - HMPREF1078_RS08830 0.64 -2.1
351,983 - HMPREF1078_RS08830 0.64 +0.5
352,063 - HMPREF1078_RS08830 0.71 -0.0
352,071 + HMPREF1078_RS08830 0.71 +1.0
352,071 + HMPREF1078_RS08830 0.71 -1.2
352,072 - HMPREF1078_RS08830 0.71 -0.5
352,124 - HMPREF1078_RS08830 0.76 -1.2
352,180 - HMPREF1078_RS08830 0.80 -0.8
352,191 - HMPREF1078_RS08830 0.81 +0.8
352,216 - HMPREF1078_RS08830 0.83 -0.2
352,216 - HMPREF1078_RS08830 0.83 +0.6
352,217 + HMPREF1078_RS08830 0.83 -3.5
352,217 + HMPREF1078_RS08830 0.83 +0.2
352,218 - HMPREF1078_RS08830 0.83 -0.8
352,218 - HMPREF1078_RS08830 0.83 -0.8
352,230 + HMPREF1078_RS08830 0.84 +0.7
352,230 + HMPREF1078_RS08830 0.84 +0.4
352,230 + HMPREF1078_RS08830 0.84 -0.8
352,269 + HMPREF1078_RS08830 0.88 +0.8
352,320 + +0.5
352,320 + -2.0
352,321 - -0.2
352,346 - -1.6
352,346 - -1.6
352,370 + +0.1
352,415 + +0.5
352,415 + +0.8
352,439 + -2.6
352,439 + +0.3
352,439 + -0.2
352,440 - +0.4
352,440 - -0.5
352,441 + -1.4
352,441 + +1.3
352,441 + +0.6
352,441 + -0.2
352,441 + -1.0
352,441 + -0.2
352,441 + -0.9
352,442 - +2.4
352,442 - +0.5
352,442 - -0.2
352,443 + -0.4
352,443 + -0.3
352,443 + -0.2
352,443 + +0.8
352,443 - +0.2
352,444 - +0.8
352,444 - -2.1
352,444 - -1.5
352,444 - +0.8
352,444 - +0.0
352,444 - -1.5
352,449 - +1.2
352,449 - +0.6
352,450 + -0.2
352,450 + -0.8
352,460 + -1.2
352,460 + -1.5
352,463 + +0.2
352,464 - -0.2
352,514 + HMPREF1078_RS08835 0.12 -0.1
352,515 - HMPREF1078_RS08835 0.12 -1.9
352,555 + HMPREF1078_RS08835 0.22 +0.8
352,555 + HMPREF1078_RS08835 0.22 +0.7
352,555 + HMPREF1078_RS08835 0.22 -0.5
352,555 + HMPREF1078_RS08835 0.22 -2.8
352,556 - HMPREF1078_RS08835 0.22 +1.8
352,556 - HMPREF1078_RS08835 0.22 -0.4
352,587 + HMPREF1078_RS08835 0.30 -1.0
352,587 + HMPREF1078_RS08835 0.30 +0.1
352,600 + HMPREF1078_RS08835 0.33 -1.8
352,601 - HMPREF1078_RS08835 0.33 -0.7
352,686 + HMPREF1078_RS08835 0.54 +1.2
352,686 + HMPREF1078_RS08835 0.54 +1.8
352,687 - HMPREF1078_RS08835 0.54 -0.5
352,687 - HMPREF1078_RS08835 0.54 +1.8
352,716 + HMPREF1078_RS08835 0.61 -2.4
352,751 + HMPREF1078_RS08835 0.69 -0.8
352,900 + -1.2
352,900 + +0.9
352,900 + -1.2
352,900 + -0.9
352,900 + -1.5
352,901 - -2.1
352,901 - -1.0
352,901 - +0.2
352,901 - -0.2
353,004 + +0.4
353,005 - +1.3
353,027 + -1.0
353,054 + -1.6
353,142 + HMPREF1078_RS19875 0.20 +0.7
353,191 + HMPREF1078_RS19875 0.32 +0.0
353,217 + HMPREF1078_RS19875 0.38 +0.4
353,217 + HMPREF1078_RS19875 0.38 -1.3
353,217 + HMPREF1078_RS19875 0.38 -2.1
353,218 - HMPREF1078_RS19875 0.38 -0.2
353,274 + HMPREF1078_RS19875 0.51 +2.0
353,274 + HMPREF1078_RS19875 0.51 +0.8
353,274 + HMPREF1078_RS19875 0.51 -1.0
353,274 + HMPREF1078_RS19875 0.51 +0.3
353,275 - HMPREF1078_RS19875 0.52 +0.1
353,275 - HMPREF1078_RS19875 0.52 -0.9
353,275 - HMPREF1078_RS19875 0.52 -1.4
353,318 + HMPREF1078_RS19875 0.62 -1.4
353,412 - HMPREF1078_RS19875 0.84 +0.2
353,442 - +0.8
353,476 + -1.1
353,479 - +1.8
353,498 + +0.1
353,510 + HMPREF1078_RS19880 0.10 +0.3
353,510 + HMPREF1078_RS19880 0.10 -0.2
353,510 + HMPREF1078_RS19880 0.10 +2.8
353,510 + HMPREF1078_RS19880 0.10 +0.8
353,511 - HMPREF1078_RS19880 0.10 +0.3
353,511 - HMPREF1078_RS19880 0.10 -0.8
353,511 - HMPREF1078_RS19880 0.10 +1.8
353,569 - HMPREF1078_RS19880 0.21 -2.2
353,578 + HMPREF1078_RS19880 0.23 -1.6
353,578 + HMPREF1078_RS19880 0.23 +0.6
353,676 + HMPREF1078_RS19880 0.41 -0.8
353,676 + HMPREF1078_RS19880 0.41 -0.2
353,676 + HMPREF1078_RS19880 0.41 +0.4
353,676 + HMPREF1078_RS19880 0.41 -0.2
353,677 - HMPREF1078_RS19880 0.41 -2.2
353,677 - HMPREF1078_RS19880 0.41 +0.8
353,677 - HMPREF1078_RS19880 0.41 -2.1
353,680 + HMPREF1078_RS19880 0.41 -0.5
353,681 - HMPREF1078_RS19880 0.42 +1.1
353,681 - HMPREF1078_RS19880 0.42 -0.2
353,681 - HMPREF1078_RS19880 0.42 -0.2
353,681 - HMPREF1078_RS19880 0.42 +1.8
353,727 + HMPREF1078_RS19880 0.50 +0.4
353,732 + HMPREF1078_RS19880 0.51 +0.8
353,732 + HMPREF1078_RS19880 0.51 +0.8
353,732 + HMPREF1078_RS19880 0.51 -1.0
353,732 + HMPREF1078_RS19880 0.51 -0.4
353,732 + HMPREF1078_RS19880 0.51 +0.8
353,732 + HMPREF1078_RS19880 0.51 -0.5
353,732 + HMPREF1078_RS19880 0.51 +0.8
353,732 + HMPREF1078_RS19880 0.51 +3.4
353,733 - HMPREF1078_RS19880 0.51 -0.2
353,733 - HMPREF1078_RS19880 0.51 -1.5
353,733 - HMPREF1078_RS19880 0.51 +0.0
353,735 + HMPREF1078_RS19880 0.52 +0.8
353,736 - HMPREF1078_RS19880 0.52 -2.4
353,736 - HMPREF1078_RS19880 0.52 +2.3
353,824 + HMPREF1078_RS19880 0.68 -0.6
353,825 - HMPREF1078_RS19880 0.68 -0.5
353,833 - HMPREF1078_RS19880 0.70 +0.6
353,861 + HMPREF1078_RS19880 0.75 +0.8
353,861 + HMPREF1078_RS19880 0.75 +0.9
353,861 + HMPREF1078_RS19880 0.75 -0.8
353,862 - HMPREF1078_RS19880 0.75 -1.6
353,863 + HMPREF1078_RS19880 0.75 +0.8
353,864 - HMPREF1078_RS19880 0.76 +0.2

Or see this region's nucleotide sequence