Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; 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_RS01920 and HMPREF1058_RS01915 are separated by 4 nucleotides HMPREF1058_RS01915 and HMPREF1058_RS01910 are separated by 18 nucleotides HMPREF1058_RS01910 and HMPREF1058_RS01905 overlap by 4 nucleotides HMPREF1058_RS01905 and HMPREF1058_RS01900 overlap by 4 nucleotides HMPREF1058_RS01900 and HMPREF1058_RS01895 overlap by 10 nucleotides HMPREF1058_RS01895 and HMPREF1058_RS21375 overlap by 4 nucleotides
HMPREF1058_RS01920: HMPREF1058_RS01920 - hypothetical protein, at 13,980 to 14,615
_RS01920
HMPREF1058_RS01915: HMPREF1058_RS01915 - hypothetical protein, at 14,620 to 15,471
_RS01915
HMPREF1058_RS01910: HMPREF1058_RS01910 - hypothetical protein, at 15,490 to 16,572
_RS01910
HMPREF1058_RS01905: HMPREF1058_RS01905 - hypothetical protein, at 16,569 to 16,883
_RS01905
HMPREF1058_RS01900: HMPREF1058_RS01900 - hypothetical protein, at 16,880 to 17,203
_RS01900
HMPREF1058_RS01895: HMPREF1058_RS01895 - hypothetical protein, at 17,194 to 17,493
_RS01895
HMPREF1058_RS21375: HMPREF1058_RS21375 - DUF2829 domain-containing protein, at 17,490 to 18,203
_RS21375
Position (kb) 15
16
17 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3
4
5 at 14.711 kb on - strand, within HMPREF1058_RS01915 at 14.747 kb on - strand, within HMPREF1058_RS01915 at 14.820 kb on - strand, within HMPREF1058_RS01915 at 14.822 kb on - strand, within HMPREF1058_RS01915 at 14.959 kb on - strand, within HMPREF1058_RS01915 at 15.241 kb on - strand, within HMPREF1058_RS01915 at 15.322 kb on - strand, within HMPREF1058_RS01915 at 15.331 kb on - strand, within HMPREF1058_RS01915 at 15.457 kb on - strand at 15.470 kb on - strand at 15.488 kb on - strand at 15.501 kb on + strand at 15.507 kb on + strand at 15.534 kb on - strand at 15.592 kb on + strand at 15.613 kb on - strand, within HMPREF1058_RS01910 at 15.616 kb on - strand, within HMPREF1058_RS01910 at 15.714 kb on + strand, within HMPREF1058_RS01910 at 15.805 kb on - strand, within HMPREF1058_RS01910 at 15.805 kb on - strand, within HMPREF1058_RS01910 at 15.809 kb on - strand, within HMPREF1058_RS01910 at 15.809 kb on - strand at 15.868 kb on + strand, within HMPREF1058_RS01910 at 15.923 kb on + strand, within HMPREF1058_RS01910 at 15.924 kb on - strand, within HMPREF1058_RS01910 at 16.061 kb on - strand, within HMPREF1058_RS01910 at 16.146 kb on + strand, within HMPREF1058_RS01910 at 16.209 kb on + strand, within HMPREF1058_RS01910 at 16.210 kb on - strand, within HMPREF1058_RS01910 at 16.315 kb on - strand, within HMPREF1058_RS01910 at 16.378 kb on - strand, within HMPREF1058_RS01910 at 16.586 kb on + strand at 16.587 kb on - strand at 16.587 kb on - strand at 16.645 kb on + strand, within HMPREF1058_RS01905 at 16.645 kb on + strand, within HMPREF1058_RS01905 at 16.738 kb on + strand, within HMPREF1058_RS01905 at 16.778 kb on + strand, within HMPREF1058_RS01905 at 16.809 kb on + strand, within HMPREF1058_RS01905 at 16.810 kb on - strand, within HMPREF1058_RS01905 at 16.866 kb on - strand at 16.899 kb on + strand at 16.900 kb on - strand at 16.900 kb on - strand at 16.900 kb on - strand at 17.086 kb on + strand, within HMPREF1058_RS01900 at 17.109 kb on + strand, within HMPREF1058_RS01900 at 17.110 kb on - strand, within HMPREF1058_RS01900 at 17.156 kb on - strand, within HMPREF1058_RS01900 at 17.194 kb on - strand at 17.296 kb on + strand, within HMPREF1058_RS01895 at 17.328 kb on + strand, within HMPREF1058_RS01895 at 17.329 kb on - strand, within HMPREF1058_RS01895 at 17.357 kb on - strand, within HMPREF1058_RS01895 at 17.453 kb on + strand, within HMPREF1058_RS01895 at 17.454 kb on - strand, within HMPREF1058_RS01895 at 17.456 kb on - strand, within HMPREF1058_RS01895 at 17.567 kb on - strand, within HMPREF1058_RS21375
Per-strain Table
Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; day4 remove 14,711 - HMPREF1058_RS01915 0.11 +5.2 14,747 - HMPREF1058_RS01915 0.15 +2.2 14,820 - HMPREF1058_RS01915 0.23 +1.0 14,822 - HMPREF1058_RS01915 0.24 +1.2 14,959 - HMPREF1058_RS01915 0.40 +2.7 15,241 - HMPREF1058_RS01915 0.73 +1.1 15,322 - HMPREF1058_RS01915 0.82 -0.0 15,331 - HMPREF1058_RS01915 0.83 +1.6 15,457 - -2.1 15,470 - -1.3 15,488 - -0.2 15,501 + +1.5 15,507 + +0.3 15,534 - -1.7 15,592 + +1.9 15,613 - HMPREF1058_RS01910 0.11 -0.7 15,616 - HMPREF1058_RS01910 0.12 +1.1 15,714 + HMPREF1058_RS01910 0.21 -0.7 15,805 - HMPREF1058_RS01910 0.29 +1.0 15,805 - HMPREF1058_RS01910 0.29 +0.3 15,809 - HMPREF1058_RS01910 0.29 +0.5 15,809 - +0.9 15,868 + HMPREF1058_RS01910 0.35 +1.0 15,923 + HMPREF1058_RS01910 0.40 +0.6 15,924 - HMPREF1058_RS01910 0.40 -2.0 16,061 - HMPREF1058_RS01910 0.53 -1.7 16,146 + HMPREF1058_RS01910 0.61 +0.3 16,209 + HMPREF1058_RS01910 0.66 +0.4 16,210 - HMPREF1058_RS01910 0.66 +1.1 16,315 - HMPREF1058_RS01910 0.76 -2.0 16,378 - HMPREF1058_RS01910 0.82 +0.3 16,586 + +1.9 16,587 - +0.9 16,587 - +0.2 16,645 + HMPREF1058_RS01905 0.24 +2.3 16,645 + HMPREF1058_RS01905 0.24 -1.7 16,738 + HMPREF1058_RS01905 0.54 +0.7 16,778 + HMPREF1058_RS01905 0.66 +1.5 16,809 + HMPREF1058_RS01905 0.76 +2.0 16,810 - HMPREF1058_RS01905 0.77 -0.7 16,866 - +1.6 16,899 + +0.2 16,900 - +1.4 16,900 - +1.6 16,900 - +5.5 17,086 + HMPREF1058_RS01900 0.64 +0.1 17,109 + HMPREF1058_RS01900 0.71 -1.3 17,110 - HMPREF1058_RS01900 0.71 +0.1 17,156 - HMPREF1058_RS01900 0.85 -1.7 17,194 - +0.3 17,296 + HMPREF1058_RS01895 0.34 -4.1 17,328 + HMPREF1058_RS01895 0.45 +0.3 17,329 - HMPREF1058_RS01895 0.45 +2.0 17,357 - HMPREF1058_RS01895 0.54 +1.3 17,453 + HMPREF1058_RS01895 0.86 +0.1 17,454 - HMPREF1058_RS01895 0.87 +0.3 17,456 - HMPREF1058_RS01895 0.87 +0.9 17,567 - HMPREF1058_RS21375 0.11 +2.8
Or see this region's nucleotide sequence