Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day4
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.
500 nt HMPREF1058_RS10425 and HMPREF1058_RS10420 are separated by 5 nucleotides HMPREF1058_RS10420 and HMPREF1058_RS10415 overlap by 1 nucleotides HMPREF1058_RS10415 and HMPREF1058_RS10410 overlap by 20 nucleotides
HMPREF1058_RS10425: HMPREF1058_RS10425 - hypothetical protein, at 670,674 to 674,690
_RS10425
HMPREF1058_RS10420: HMPREF1058_RS10420 - hypothetical protein, at 674,696 to 675,010
_RS10420
HMPREF1058_RS10415: HMPREF1058_RS10415 - hypothetical protein, at 675,010 to 675,387
_RS10415
HMPREF1058_RS10410: HMPREF1058_RS10410 - reverse transcriptase, at 675,368 to 676,408
_RS10410
Position (kb) 674
675
676 Strain fitness (log2 ratio) -5
-4
-3
-2
-1
0
1
2
3
4 at 673.737 kb on + strand, within HMPREF1058_RS10425 at 673.738 kb on - strand, within HMPREF1058_RS10425 at 673.769 kb on - strand, within HMPREF1058_RS10425 at 673.803 kb on - strand, within HMPREF1058_RS10425 at 673.803 kb on - strand, within HMPREF1058_RS10425 at 673.880 kb on + strand, within HMPREF1058_RS10425 at 673.899 kb on - strand, within HMPREF1058_RS10425 at 673.942 kb on + strand, within HMPREF1058_RS10425 at 673.943 kb on - strand, within HMPREF1058_RS10425 at 674.026 kb on + strand, within HMPREF1058_RS10425 at 674.027 kb on - strand, within HMPREF1058_RS10425 at 674.042 kb on + strand, within HMPREF1058_RS10425 at 674.065 kb on + strand, within HMPREF1058_RS10425 at 674.066 kb on - strand, within HMPREF1058_RS10425 at 674.066 kb on - strand, within HMPREF1058_RS10425 at 674.066 kb on - strand, within HMPREF1058_RS10425 at 674.066 kb on - strand, within HMPREF1058_RS10425 at 674.168 kb on + strand, within HMPREF1058_RS10425 at 674.168 kb on + strand, within HMPREF1058_RS10425 at 674.169 kb on - strand, within HMPREF1058_RS10425 at 674.243 kb on + strand, within HMPREF1058_RS10425 at 674.247 kb on - strand, within HMPREF1058_RS10425 at 674.283 kb on - strand, within HMPREF1058_RS10425 at 674.306 kb on + strand at 674.349 kb on - strand at 674.353 kb on - strand at 674.390 kb on - strand at 674.458 kb on + strand at 674.524 kb on + strand at 674.527 kb on + strand at 674.528 kb on - strand at 674.546 kb on + strand at 674.552 kb on - strand at 674.593 kb on + strand at 674.596 kb on - strand at 674.628 kb on - strand at 674.650 kb on - strand at 674.682 kb on + strand at 674.683 kb on - strand at 674.695 kb on - strand at 674.698 kb on - strand at 674.710 kb on - strand at 674.746 kb on + strand, within HMPREF1058_RS10420 at 674.839 kb on + strand, within HMPREF1058_RS10420 at 674.839 kb on + strand, within HMPREF1058_RS10420 at 674.840 kb on - strand, within HMPREF1058_RS10420 at 674.859 kb on + strand, within HMPREF1058_RS10420 at 674.885 kb on + strand, within HMPREF1058_RS10420 at 674.885 kb on + strand, within HMPREF1058_RS10420 at 674.886 kb on - strand, within HMPREF1058_RS10420 at 674.979 kb on - strand at 674.998 kb on + strand at 675.019 kb on - strand at 675.022 kb on - strand at 675.024 kb on + strand at 675.207 kb on + strand, within HMPREF1058_RS10415 at 675.244 kb on - strand, within HMPREF1058_RS10415 at 675.326 kb on + strand, within HMPREF1058_RS10415 at 675.326 kb on + strand, within HMPREF1058_RS10415 at 675.326 kb on + strand, within HMPREF1058_RS10415 at 675.382 kb on + strand at 675.382 kb on + strand at 675.382 kb on + strand at 675.383 kb on - strand at 675.387 kb on + strand at 675.405 kb on - strand at 675.417 kb on - strand at 675.435 kb on + strand at 675.436 kb on - strand at 675.463 kb on + strand at 675.464 kb on - strand at 675.474 kb on + strand, within HMPREF1058_RS10410 at 675.523 kb on + strand, within HMPREF1058_RS10410 at 675.528 kb on - strand, within HMPREF1058_RS10410 at 675.675 kb on - strand, within HMPREF1058_RS10410 at 675.675 kb on - strand, within HMPREF1058_RS10410 at 675.680 kb on + strand, within HMPREF1058_RS10410 at 675.680 kb on + strand, within HMPREF1058_RS10410 at 675.758 kb on - strand, within HMPREF1058_RS10410 at 675.785 kb on + strand, within HMPREF1058_RS10410 at 675.855 kb on + strand, within HMPREF1058_RS10410 at 675.887 kb on + strand, within HMPREF1058_RS10410 at 675.888 kb on - strand, within HMPREF1058_RS10410 at 675.955 kb on + strand, within HMPREF1058_RS10410 at 675.986 kb on + strand, within HMPREF1058_RS10410 at 675.987 kb on - strand, within HMPREF1058_RS10410 at 675.987 kb on - strand, within HMPREF1058_RS10410 at 675.987 kb on - strand, within HMPREF1058_RS10410 at 675.987 kb on - strand, within HMPREF1058_RS10410 at 675.987 kb on - strand, within HMPREF1058_RS10410 at 676.005 kb on + strand, within HMPREF1058_RS10410 at 676.009 kb on + strand, within HMPREF1058_RS10410 at 676.009 kb on + strand, within HMPREF1058_RS10410 at 676.010 kb on - strand, within HMPREF1058_RS10410 at 676.010 kb on - strand, within HMPREF1058_RS10410 at 676.010 kb on - strand, within HMPREF1058_RS10410 at 676.010 kb on - strand, within HMPREF1058_RS10410
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day4 remove 673,737 + HMPREF1058_RS10425 0.76 +1.3 673,738 - HMPREF1058_RS10425 0.76 -3.1 673,769 - HMPREF1058_RS10425 0.77 +1.9 673,803 - HMPREF1058_RS10425 0.78 +0.6 673,803 - HMPREF1058_RS10425 0.78 +0.7 673,880 + HMPREF1058_RS10425 0.80 -0.8 673,899 - HMPREF1058_RS10425 0.80 -0.5 673,942 + HMPREF1058_RS10425 0.81 +0.4 673,943 - HMPREF1058_RS10425 0.81 -1.8 674,026 + HMPREF1058_RS10425 0.83 -2.3 674,027 - HMPREF1058_RS10425 0.83 +0.2 674,042 + HMPREF1058_RS10425 0.84 +0.5 674,065 + HMPREF1058_RS10425 0.84 -2.0 674,066 - HMPREF1058_RS10425 0.84 -0.4 674,066 - HMPREF1058_RS10425 0.84 +1.2 674,066 - HMPREF1058_RS10425 0.84 -0.3 674,066 - HMPREF1058_RS10425 0.84 -1.3 674,168 + HMPREF1058_RS10425 0.87 +2.3 674,168 + HMPREF1058_RS10425 0.87 -1.0 674,169 - HMPREF1058_RS10425 0.87 +0.0 674,243 + HMPREF1058_RS10425 0.89 -0.4 674,247 - HMPREF1058_RS10425 0.89 -2.2 674,283 - HMPREF1058_RS10425 0.90 -3.0 674,306 + +0.2 674,349 - +0.0 674,353 - -0.2 674,390 - +0.0 674,458 + -0.0 674,524 + +1.0 674,527 + +0.7 674,528 - +1.7 674,546 + -0.9 674,552 - -2.5 674,593 + -1.1 674,596 - -2.0 674,628 - +0.9 674,650 - -1.7 674,682 + +0.6 674,683 - +1.1 674,695 - -0.4 674,698 - -1.3 674,710 - -1.8 674,746 + HMPREF1058_RS10420 0.16 -0.1 674,839 + HMPREF1058_RS10420 0.45 +2.3 674,839 + HMPREF1058_RS10420 0.45 +1.0 674,840 - HMPREF1058_RS10420 0.46 +2.9 674,859 + HMPREF1058_RS10420 0.52 -0.5 674,885 + HMPREF1058_RS10420 0.60 +0.5 674,885 + HMPREF1058_RS10420 0.60 +2.0 674,886 - HMPREF1058_RS10420 0.60 -1.8 674,979 - -1.3 674,998 + -4.8 675,019 - +0.8 675,022 - +0.8 675,024 + -0.3 675,207 + HMPREF1058_RS10415 0.52 +2.0 675,244 - HMPREF1058_RS10415 0.62 -2.7 675,326 + HMPREF1058_RS10415 0.84 +0.2 675,326 + HMPREF1058_RS10415 0.84 -0.9 675,326 + HMPREF1058_RS10415 0.84 +2.3 675,382 + -0.3 675,382 + -1.3 675,382 + -0.3 675,383 - -0.6 675,387 + -0.3 675,405 - -0.6 675,417 - -4.0 675,435 + +0.9 675,436 - -1.8 675,463 + -0.3 675,464 - -2.8 675,474 + HMPREF1058_RS10410 0.10 +0.6 675,523 + HMPREF1058_RS10410 0.15 -0.6 675,528 - HMPREF1058_RS10410 0.15 -2.3 675,675 - HMPREF1058_RS10410 0.29 +1.0 675,675 - HMPREF1058_RS10410 0.29 +2.5 675,680 + HMPREF1058_RS10410 0.30 +4.4 675,680 + HMPREF1058_RS10410 0.30 -1.4 675,758 - HMPREF1058_RS10410 0.37 -0.2 675,785 + HMPREF1058_RS10410 0.40 +1.5 675,855 + HMPREF1058_RS10410 0.47 +1.2 675,887 + HMPREF1058_RS10410 0.50 -0.1 675,888 - HMPREF1058_RS10410 0.50 -2.6 675,955 + HMPREF1058_RS10410 0.56 -0.2 675,986 + HMPREF1058_RS10410 0.59 +0.9 675,987 - HMPREF1058_RS10410 0.59 +0.2 675,987 - HMPREF1058_RS10410 0.59 -1.1 675,987 - HMPREF1058_RS10410 0.59 -0.4 675,987 - HMPREF1058_RS10410 0.59 -0.1 675,987 - HMPREF1058_RS10410 0.59 +0.2 676,005 + HMPREF1058_RS10410 0.61 +0.8 676,009 + HMPREF1058_RS10410 0.62 +0.1 676,009 + HMPREF1058_RS10410 0.62 +1.8 676,010 - HMPREF1058_RS10410 0.62 -0.4 676,010 - HMPREF1058_RS10410 0.62 -0.2 676,010 - HMPREF1058_RS10410 0.62 -0.8 676,010 - HMPREF1058_RS10410 0.62 +1.6
Or see this region's nucleotide sequence