Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS01370

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse14; 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 ntHMPREF1058_RS01375 and HMPREF1058_RS01370 are separated by 361 nucleotidesHMPREF1058_RS01370 and HMPREF1058_RS01365 are separated by 71 nucleotides HMPREF1058_RS01375: HMPREF1058_RS01375 - site-specific integrase, at 142,398 to 143,615 _RS01375 HMPREF1058_RS01370: HMPREF1058_RS01370 - hypothetical protein, at 143,977 to 144,858 _RS01370 HMPREF1058_RS01365: HMPREF1058_RS01365 - DEAD/DEAH box helicase family protein, at 144,930 to 146,786 _RS01365 Position (kb) 143 144 145Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 142.980 kb on - strand, within HMPREF1058_RS01375at 143.004 kb on + strand, within HMPREF1058_RS01375at 143.027 kb on - strand, within HMPREF1058_RS01375at 143.031 kb on - strand, within HMPREF1058_RS01375at 143.106 kb on + strand, within HMPREF1058_RS01375at 143.107 kb on - strand, within HMPREF1058_RS01375at 143.128 kb on + strand, within HMPREF1058_RS01375at 143.128 kb on + strand, within HMPREF1058_RS01375at 143.143 kb on - strand, within HMPREF1058_RS01375at 143.200 kb on + strand, within HMPREF1058_RS01375at 143.317 kb on + strand, within HMPREF1058_RS01375at 143.346 kb on - strand, within HMPREF1058_RS01375at 143.374 kb on + strand, within HMPREF1058_RS01375at 143.378 kb on + strand, within HMPREF1058_RS01375at 143.454 kb on + strand, within HMPREF1058_RS01375at 143.455 kb on - strand, within HMPREF1058_RS01375at 143.558 kb on - strandat 143.558 kb on - strandat 143.588 kb on - strandat 143.635 kb on + strandat 143.635 kb on + strandat 143.636 kb on - strandat 143.641 kb on + strandat 143.654 kb on + strandat 143.655 kb on - strandat 143.722 kb on + strandat 143.723 kb on - strandat 143.759 kb on + strandat 143.759 kb on + strandat 143.760 kb on - strandat 143.760 kb on - strandat 143.760 kb on - strandat 143.825 kb on + strandat 143.825 kb on + strandat 143.825 kb on + strandat 143.826 kb on - strandat 143.826 kb on - strandat 143.826 kb on - strandat 143.844 kb on - strandat 143.871 kb on + strandat 143.880 kb on - strandat 143.882 kb on - strandat 143.948 kb on + strandat 143.972 kb on - strandat 143.972 kb on - strandat 144.060 kb on + strandat 144.061 kb on - strandat 144.064 kb on - strandat 144.105 kb on + strandat 144.261 kb on - strand, within HMPREF1058_RS01370at 144.263 kb on + strand, within HMPREF1058_RS01370at 144.264 kb on - strand, within HMPREF1058_RS01370at 144.306 kb on - strand, within HMPREF1058_RS01370at 144.347 kb on + strand, within HMPREF1058_RS01370at 144.348 kb on - strand, within HMPREF1058_RS01370at 144.382 kb on + strand, within HMPREF1058_RS01370at 144.382 kb on + strand, within HMPREF1058_RS01370at 144.382 kb on + strand, within HMPREF1058_RS01370at 144.382 kb on + strand, within HMPREF1058_RS01370at 144.382 kb on + strand, within HMPREF1058_RS01370at 144.383 kb on - strand, within HMPREF1058_RS01370at 144.383 kb on - strand, within HMPREF1058_RS01370at 144.386 kb on + strand, within HMPREF1058_RS01370at 144.477 kb on + strand, within HMPREF1058_RS01370at 144.512 kb on - strand, within HMPREF1058_RS01370at 144.670 kb on + strand, within HMPREF1058_RS01370at 144.689 kb on - strand, within HMPREF1058_RS01370at 144.810 kb on + strandat 144.829 kb on - strandat 144.830 kb on + strandat 144.830 kb on + strandat 144.831 kb on - strandat 144.856 kb on + strandat 144.887 kb on - strandat 144.932 kb on - strandat 144.934 kb on - strandat 144.940 kb on - strandat 144.942 kb on - strandat 144.947 kb on + strandat 144.966 kb on - strandat 144.981 kb on + strandat 144.986 kb on + strandat 145.011 kb on + strandat 145.148 kb on + strand, within HMPREF1058_RS01365at 145.170 kb on - strand, within HMPREF1058_RS01365at 145.220 kb on + strand, within HMPREF1058_RS01365at 145.312 kb on + strand, within HMPREF1058_RS01365at 145.359 kb on + strand, within HMPREF1058_RS01365at 145.360 kb on - strand, within HMPREF1058_RS01365at 145.361 kb on + strand, within HMPREF1058_RS01365at 145.362 kb on - strand, within HMPREF1058_RS01365at 145.390 kb on + strand, within HMPREF1058_RS01365at 145.391 kb on - strand, within HMPREF1058_RS01365at 145.449 kb on - strand, within HMPREF1058_RS01365at 145.460 kb on - strand, within HMPREF1058_RS01365at 145.486 kb on + strand, within HMPREF1058_RS01365at 145.486 kb on + strand, within HMPREF1058_RS01365at 145.487 kb on - strand, within HMPREF1058_RS01365at 145.497 kb on + strand, within HMPREF1058_RS01365at 145.498 kb on - strand, within HMPREF1058_RS01365at 145.498 kb on - strand, within HMPREF1058_RS01365at 145.498 kb on - strand, within HMPREF1058_RS01365at 145.498 kb on - strand, within HMPREF1058_RS01365at 145.499 kb on + strand, within HMPREF1058_RS01365at 145.500 kb on - strand, within HMPREF1058_RS01365at 145.500 kb on - strand, within HMPREF1058_RS01365at 145.502 kb on - strand, within HMPREF1058_RS01365at 145.547 kb on + strand, within HMPREF1058_RS01365at 145.547 kb on + strand, within HMPREF1058_RS01365at 145.548 kb on - strand, within HMPREF1058_RS01365at 145.601 kb on + strand, within HMPREF1058_RS01365at 145.614 kb on + strand, within HMPREF1058_RS01365at 145.674 kb on - strand, within HMPREF1058_RS01365at 145.707 kb on + strand, within HMPREF1058_RS01365at 145.728 kb on - strandat 145.730 kb on - strand, within HMPREF1058_RS01365at 145.730 kb on - strand, within HMPREF1058_RS01365at 145.792 kb on - strand, within HMPREF1058_RS01365at 145.792 kb on - strand, within HMPREF1058_RS01365

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse14; day3
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142,980 - HMPREF1058_RS01375 0.48 -0.0
143,004 + HMPREF1058_RS01375 0.50 +0.7
143,027 - HMPREF1058_RS01375 0.52 -0.5
143,031 - HMPREF1058_RS01375 0.52 -0.5
143,106 + HMPREF1058_RS01375 0.58 +0.1
143,107 - HMPREF1058_RS01375 0.58 -0.2
143,128 + HMPREF1058_RS01375 0.60 +0.7
143,128 + HMPREF1058_RS01375 0.60 -0.4
143,143 - HMPREF1058_RS01375 0.61 -0.5
143,200 + HMPREF1058_RS01375 0.66 +0.7
143,317 + HMPREF1058_RS01375 0.75 +0.3
143,346 - HMPREF1058_RS01375 0.78 +0.3
143,374 + HMPREF1058_RS01375 0.80 +1.4
143,378 + HMPREF1058_RS01375 0.80 -0.9
143,454 + HMPREF1058_RS01375 0.87 +0.5
143,455 - HMPREF1058_RS01375 0.87 +1.3
143,558 - +1.4
143,558 - +0.3
143,588 - +0.3
143,635 + -0.1
143,635 + -0.4
143,636 - -2.0
143,641 + +0.3
143,654 + +0.9
143,655 - +2.2
143,722 + -0.7
143,723 - -0.9
143,759 + +0.0
143,759 + -1.0
143,760 - -1.3
143,760 - +0.1
143,760 - -0.5
143,825 + -0.3
143,825 + +0.9
143,825 + -0.5
143,826 - -0.5
143,826 - +1.1
143,826 - -0.7
143,844 - +0.8
143,871 + +0.4
143,880 - +0.5
143,882 - +0.5
143,948 + -1.7
143,972 - +0.0
143,972 - +0.1
144,060 + +0.9
144,061 - -0.3
144,064 - +0.8
144,105 + +0.3
144,261 - HMPREF1058_RS01370 0.32 +0.5
144,263 + HMPREF1058_RS01370 0.32 +0.6
144,264 - HMPREF1058_RS01370 0.33 +0.8
144,306 - HMPREF1058_RS01370 0.37 -0.4
144,347 + HMPREF1058_RS01370 0.42 +0.5
144,348 - HMPREF1058_RS01370 0.42 +0.3
144,382 + HMPREF1058_RS01370 0.46 +1.3
144,382 + HMPREF1058_RS01370 0.46 +1.0
144,382 + HMPREF1058_RS01370 0.46 +0.9
144,382 + HMPREF1058_RS01370 0.46 -0.3
144,382 + HMPREF1058_RS01370 0.46 +0.0
144,383 - HMPREF1058_RS01370 0.46 +0.8
144,383 - HMPREF1058_RS01370 0.46 -0.4
144,386 + HMPREF1058_RS01370 0.46 +0.3
144,477 + HMPREF1058_RS01370 0.57 -0.5
144,512 - HMPREF1058_RS01370 0.61 +0.5
144,670 + HMPREF1058_RS01370 0.79 +0.1
144,689 - HMPREF1058_RS01370 0.81 +0.2
144,810 + +0.3
144,829 - -1.0
144,830 + +0.3
144,830 + -0.2
144,831 - -0.0
144,856 + +1.0
144,887 - +1.0
144,932 - +1.5
144,934 - -0.3
144,940 - +1.8
144,942 - -0.3
144,947 + +0.6
144,966 - +0.7
144,981 + -0.2
144,986 + -0.2
145,011 + +0.0
145,148 + HMPREF1058_RS01365 0.12 +0.1
145,170 - HMPREF1058_RS01365 0.13 +0.3
145,220 + HMPREF1058_RS01365 0.16 +0.3
145,312 + HMPREF1058_RS01365 0.21 -2.7
145,359 + HMPREF1058_RS01365 0.23 +0.1
145,360 - HMPREF1058_RS01365 0.23 +1.8
145,361 + HMPREF1058_RS01365 0.23 -1.3
145,362 - HMPREF1058_RS01365 0.23 +0.6
145,390 + HMPREF1058_RS01365 0.25 -0.7
145,391 - HMPREF1058_RS01365 0.25 -0.7
145,449 - HMPREF1058_RS01365 0.28 -2.0
145,460 - HMPREF1058_RS01365 0.29 +1.3
145,486 + HMPREF1058_RS01365 0.30 -0.7
145,486 + HMPREF1058_RS01365 0.30 -1.7
145,487 - HMPREF1058_RS01365 0.30 +0.4
145,497 + HMPREF1058_RS01365 0.31 +0.5
145,498 - HMPREF1058_RS01365 0.31 +0.4
145,498 - HMPREF1058_RS01365 0.31 -0.2
145,498 - HMPREF1058_RS01365 0.31 +0.8
145,498 - HMPREF1058_RS01365 0.31 +0.7
145,499 + HMPREF1058_RS01365 0.31 -0.3
145,500 - HMPREF1058_RS01365 0.31 +0.4
145,500 - HMPREF1058_RS01365 0.31 -2.9
145,502 - HMPREF1058_RS01365 0.31 -0.6
145,547 + HMPREF1058_RS01365 0.33 +0.4
145,547 + HMPREF1058_RS01365 0.33 -1.2
145,548 - HMPREF1058_RS01365 0.33 -1.9
145,601 + HMPREF1058_RS01365 0.36 -0.5
145,614 + HMPREF1058_RS01365 0.37 -0.1
145,674 - HMPREF1058_RS01365 0.40 -0.7
145,707 + HMPREF1058_RS01365 0.42 -0.3
145,728 - -0.1
145,730 - HMPREF1058_RS01365 0.43 +0.3
145,730 - HMPREF1058_RS01365 0.43 -2.7
145,792 - HMPREF1058_RS01365 0.46 +2.6
145,792 - HMPREF1058_RS01365 0.46 -2.9

Or see this region's nucleotide sequence