Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS04425

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse19; day9

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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_RS04430 and HMPREF1058_RS04425 are separated by 912 nucleotidesHMPREF1058_RS04425 and HMPREF1058_RS04420 are separated by 33 nucleotidesHMPREF1058_RS04420 and HMPREF1058_RS04415 are separated by 166 nucleotides HMPREF1058_RS04430: HMPREF1058_RS04430 - alpha-1,2-fucosyltransferase, at 37,321 to 38,166 _RS04430 HMPREF1058_RS04425: HMPREF1058_RS04425 - mechanosensitive ion channel, at 39,079 to 39,924 _RS04425 HMPREF1058_RS04420: HMPREF1058_RS04420 - PorT family protein, at 39,958 to 40,635 _RS04420 HMPREF1058_RS04415: HMPREF1058_RS04415 - ion transporter, at 40,802 to 41,563 _RS04415 Position (kb) 39 40Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 38.087 kb on + strandat 38.155 kb on + strandat 38.197 kb on + strandat 38.313 kb on + strandat 38.324 kb on + strandat 38.327 kb on - strandat 38.329 kb on - strandat 38.389 kb on - strandat 38.393 kb on + strandat 38.393 kb on + strandat 38.394 kb on - strandat 38.425 kb on - strandat 38.674 kb on - strandat 38.726 kb on - strandat 38.730 kb on - strandat 38.730 kb on - strandat 38.777 kb on + strandat 38.780 kb on + strandat 38.780 kb on + strandat 38.781 kb on - strandat 38.781 kb on - strandat 38.781 kb on - strandat 38.782 kb on + strandat 38.782 kb on + strandat 38.782 kb on + strandat 38.783 kb on - strandat 38.783 kb on - strandat 38.832 kb on - strandat 38.832 kb on - strandat 38.842 kb on - strandat 38.866 kb on - strandat 38.874 kb on + strandat 38.915 kb on + strandat 39.003 kb on + strandat 39.004 kb on - strandat 39.086 kb on + strandat 39.090 kb on - strandat 39.144 kb on - strandat 39.173 kb on + strand, within HMPREF1058_RS04425at 39.174 kb on - strand, within HMPREF1058_RS04425at 39.230 kb on + strand, within HMPREF1058_RS04425at 39.231 kb on - strand, within HMPREF1058_RS04425at 39.233 kb on + strand, within HMPREF1058_RS04425at 39.233 kb on + strand, within HMPREF1058_RS04425at 39.335 kb on + strand, within HMPREF1058_RS04425at 39.402 kb on - strand, within HMPREF1058_RS04425at 39.402 kb on - strand, within HMPREF1058_RS04425at 39.402 kb on - strand, within HMPREF1058_RS04425at 39.488 kb on + strand, within HMPREF1058_RS04425at 39.489 kb on - strand, within HMPREF1058_RS04425at 39.571 kb on + strand, within HMPREF1058_RS04425at 39.571 kb on + strand, within HMPREF1058_RS04425at 39.571 kb on + strand, within HMPREF1058_RS04425at 39.571 kb on + strand, within HMPREF1058_RS04425at 39.572 kb on - strand, within HMPREF1058_RS04425at 39.610 kb on - strand, within HMPREF1058_RS04425at 39.674 kb on + strand, within HMPREF1058_RS04425at 39.703 kb on - strand, within HMPREF1058_RS04425at 39.706 kb on - strand, within HMPREF1058_RS04425at 39.706 kb on - strand, within HMPREF1058_RS04425at 39.706 kb on - strand, within HMPREF1058_RS04425at 39.723 kb on + strand, within HMPREF1058_RS04425at 39.765 kb on - strand, within HMPREF1058_RS04425at 39.786 kb on + strand, within HMPREF1058_RS04425at 39.787 kb on - strand, within HMPREF1058_RS04425at 39.787 kb on - strand, within HMPREF1058_RS04425at 39.787 kb on - strand, within HMPREF1058_RS04425at 39.818 kb on - strand, within HMPREF1058_RS04425at 39.830 kb on + strand, within HMPREF1058_RS04425at 39.837 kb on + strand, within HMPREF1058_RS04425at 39.840 kb on + strandat 39.854 kb on - strandat 39.865 kb on - strandat 39.922 kb on + strandat 39.933 kb on + strandat 40.075 kb on - strand, within HMPREF1058_RS04420at 40.131 kb on + strand, within HMPREF1058_RS04420at 40.230 kb on + strand, within HMPREF1058_RS04420at 40.230 kb on + strand, within HMPREF1058_RS04420at 40.381 kb on - strand, within HMPREF1058_RS04420at 40.382 kb on + strand, within HMPREF1058_RS04420at 40.382 kb on + strand, within HMPREF1058_RS04420at 40.397 kb on + strand, within HMPREF1058_RS04420at 40.398 kb on - strand, within HMPREF1058_RS04420at 40.401 kb on + strand, within HMPREF1058_RS04420at 40.481 kb on + strand, within HMPREF1058_RS04420at 40.487 kb on + strand, within HMPREF1058_RS04420at 40.498 kb on + strand, within HMPREF1058_RS04420at 40.500 kb on + strand, within HMPREF1058_RS04420at 40.536 kb on - strand, within HMPREF1058_RS04420at 40.536 kb on - strand, within HMPREF1058_RS04420at 40.536 kb on - strand, within HMPREF1058_RS04420at 40.559 kb on + strand, within HMPREF1058_RS04420at 40.560 kb on - strand, within HMPREF1058_RS04420at 40.624 kb on + strandat 40.625 kb on - strandat 40.704 kb on + strandat 40.719 kb on + strandat 40.782 kb on - strandat 40.885 kb on + strand, within HMPREF1058_RS04415

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse19; day9
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38,087 + -0.3
38,155 + +0.4
38,197 + +0.1
38,313 + -1.2
38,324 + +0.2
38,327 - +1.1
38,329 - -0.2
38,389 - +1.0
38,393 + -1.3
38,393 + -1.6
38,394 - -0.6
38,425 - -0.8
38,674 - +0.4
38,726 - +1.1
38,730 - -1.0
38,730 - -0.0
38,777 + +1.2
38,780 + +0.4
38,780 + -0.6
38,781 - +0.2
38,781 - +2.2
38,781 - +0.4
38,782 + -0.6
38,782 + -2.8
38,782 + +1.3
38,783 - -0.6
38,783 - -1.3
38,832 - -0.3
38,832 - -0.0
38,842 - +2.9
38,866 - +1.0
38,874 + +0.7
38,915 + -1.2
39,003 + -2.1
39,004 - -0.6
39,086 + +1.3
39,090 - -0.2
39,144 - +0.7
39,173 + HMPREF1058_RS04425 0.11 -0.9
39,174 - HMPREF1058_RS04425 0.11 -0.3
39,230 + HMPREF1058_RS04425 0.18 +0.8
39,231 - HMPREF1058_RS04425 0.18 -0.3
39,233 + HMPREF1058_RS04425 0.18 -0.0
39,233 + HMPREF1058_RS04425 0.18 -1.2
39,335 + HMPREF1058_RS04425 0.30 +0.4
39,402 - HMPREF1058_RS04425 0.38 +0.7
39,402 - HMPREF1058_RS04425 0.38 +1.6
39,402 - HMPREF1058_RS04425 0.38 -0.8
39,488 + HMPREF1058_RS04425 0.48 +0.2
39,489 - HMPREF1058_RS04425 0.48 -0.6
39,571 + HMPREF1058_RS04425 0.58 -1.1
39,571 + HMPREF1058_RS04425 0.58 -0.7
39,571 + HMPREF1058_RS04425 0.58 -0.6
39,571 + HMPREF1058_RS04425 0.58 +0.0
39,572 - HMPREF1058_RS04425 0.58 +0.8
39,610 - HMPREF1058_RS04425 0.63 -1.8
39,674 + HMPREF1058_RS04425 0.70 -0.8
39,703 - HMPREF1058_RS04425 0.74 +1.4
39,706 - HMPREF1058_RS04425 0.74 -0.5
39,706 - HMPREF1058_RS04425 0.74 -0.8
39,706 - HMPREF1058_RS04425 0.74 -1.6
39,723 + HMPREF1058_RS04425 0.76 +0.4
39,765 - HMPREF1058_RS04425 0.81 +0.2
39,786 + HMPREF1058_RS04425 0.84 +0.7
39,787 - HMPREF1058_RS04425 0.84 +0.6
39,787 - HMPREF1058_RS04425 0.84 +2.9
39,787 - HMPREF1058_RS04425 0.84 +0.1
39,818 - HMPREF1058_RS04425 0.87 +0.7
39,830 + HMPREF1058_RS04425 0.89 -0.5
39,837 + HMPREF1058_RS04425 0.90 +1.3
39,840 + +1.0
39,854 - -0.1
39,865 - -0.8
39,922 + -1.3
39,933 + +1.0
40,075 - HMPREF1058_RS04420 0.17 +0.6
40,131 + HMPREF1058_RS04420 0.26 +0.2
40,230 + HMPREF1058_RS04420 0.40 -0.2
40,230 + HMPREF1058_RS04420 0.40 +1.2
40,381 - HMPREF1058_RS04420 0.62 -1.3
40,382 + HMPREF1058_RS04420 0.63 +0.8
40,382 + HMPREF1058_RS04420 0.63 -2.7
40,397 + HMPREF1058_RS04420 0.65 -0.3
40,398 - HMPREF1058_RS04420 0.65 -0.1
40,401 + HMPREF1058_RS04420 0.65 +2.0
40,481 + HMPREF1058_RS04420 0.77 +0.7
40,487 + HMPREF1058_RS04420 0.78 +0.8
40,498 + HMPREF1058_RS04420 0.80 -1.0
40,500 + HMPREF1058_RS04420 0.80 +0.1
40,536 - HMPREF1058_RS04420 0.85 +0.8
40,536 - HMPREF1058_RS04420 0.85 -0.0
40,536 - HMPREF1058_RS04420 0.85 -0.4
40,559 + HMPREF1058_RS04420 0.89 -0.2
40,560 - HMPREF1058_RS04420 0.89 -0.2
40,624 + +1.0
40,625 - -0.1
40,704 + +0.7
40,719 + +0.7
40,782 - +1.0
40,885 + HMPREF1058_RS04415 0.11 +1.0

Or see this region's nucleotide sequence