Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse11; day3
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_RS0119830 and HMPREF1058_RS21490 are separated by 172 nucleotides HMPREF1058_RS21490 and HMPREF1058_RS0119835 are separated by 449 nucleotides HMPREF1058_RS0119835 and HMPREF1058_RS05695 are separated by 3 nucleotides HMPREF1058_RS05695 and HMPREF1058_RS05690 are separated by 142 nucleotides
HMPREF1058_RS0119830: HMPREF1058_RS0119830 - helix-turn-helix transcriptional regulator, at 101,127 to 101,366
_RS0119830
HMPREF1058_RS21490: HMPREF1058_RS21490 - hypothetical protein, at 101,539 to 101,682
_RS21490
HMPREF1058_RS0119835: HMPREF1058_RS0119835 - type II toxin-antitoxin system HipA family toxin, at 102,132 to 103,395
_RS0119835
HMPREF1058_RS05695: HMPREF1058_RS05695 - helix-turn-helix domain-containing protein, at 103,399 to 103,719
_RS05695
HMPREF1058_RS05690: HMPREF1058_RS05690 - hypothetical protein, at 103,862 to 104,137
_RS05690
Position (kb) 102
103
104 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3
4 at 101.152 kb on - strand, within HMPREF1058_RS0119830 at 101.346 kb on - strand at 101.352 kb on - strand at 101.367 kb on + strand at 101.372 kb on - strand at 101.420 kb on + strand at 101.420 kb on + strand at 101.454 kb on + strand at 101.529 kb on - strand at 101.601 kb on + strand, within HMPREF1058_RS21490 at 101.603 kb on + strand, within HMPREF1058_RS21490 at 101.606 kb on + strand, within HMPREF1058_RS21490 at 101.622 kb on + strand, within HMPREF1058_RS21490 at 101.623 kb on - strand, within HMPREF1058_RS21490 at 101.689 kb on + strand at 101.721 kb on - strand at 101.814 kb on + strand at 101.815 kb on - strand at 101.870 kb on + strand at 101.870 kb on + strand at 101.929 kb on + strand at 101.982 kb on + strand at 102.015 kb on - strand at 102.084 kb on - strand at 102.114 kb on - strand at 102.176 kb on + strand at 102.213 kb on + strand at 102.232 kb on - strand at 102.284 kb on + strand, within HMPREF1058_RS0119835 at 102.287 kb on - strand, within HMPREF1058_RS0119835 at 102.511 kb on - strand, within HMPREF1058_RS0119835 at 102.553 kb on + strand, within HMPREF1058_RS0119835 at 102.566 kb on + strand, within HMPREF1058_RS0119835 at 102.588 kb on - strand, within HMPREF1058_RS0119835 at 102.664 kb on - strand, within HMPREF1058_RS0119835 at 102.664 kb on - strand, within HMPREF1058_RS0119835 at 102.714 kb on + strand, within HMPREF1058_RS0119835 at 102.715 kb on - strand, within HMPREF1058_RS0119835 at 102.801 kb on - strand, within HMPREF1058_RS0119835 at 102.801 kb on - strand, within HMPREF1058_RS0119835 at 102.803 kb on - strand, within HMPREF1058_RS0119835 at 102.998 kb on + strand, within HMPREF1058_RS0119835 at 103.191 kb on + strand, within HMPREF1058_RS0119835 at 103.211 kb on + strand, within HMPREF1058_RS0119835 at 103.230 kb on + strand, within HMPREF1058_RS0119835 at 103.330 kb on + strand at 103.378 kb on + strand at 103.378 kb on + strand at 103.378 kb on + strand at 103.378 kb on + strand at 103.379 kb on - strand at 103.379 kb on - strand at 103.379 kb on - strand at 103.379 kb on - strand at 103.379 kb on - strand at 103.379 kb on - strand at 103.379 kb on - strand at 103.379 kb on - strand at 103.379 kb on - strand at 103.382 kb on + strand at 103.383 kb on - strand at 103.384 kb on + strand at 103.505 kb on - strand, within HMPREF1058_RS05695 at 103.512 kb on - strand, within HMPREF1058_RS05695 at 103.645 kb on - strand, within HMPREF1058_RS05695 at 103.707 kb on + strand at 103.733 kb on - strand at 103.737 kb on + strand at 103.762 kb on - strand at 103.765 kb on + strand at 103.807 kb on - strand at 103.810 kb on - strand at 103.822 kb on + strand at 103.859 kb on - strand at 103.860 kb on - strand at 103.903 kb on + strand, within HMPREF1058_RS05690 at 103.903 kb on + strand, within HMPREF1058_RS05690 at 103.964 kb on - strand, within HMPREF1058_RS05690 at 103.987 kb on + strand, within HMPREF1058_RS05690 at 104.156 kb on + strand at 104.204 kb on - strand
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse11; day3 remove 101,152 - HMPREF1058_RS0119830 0.10 -0.9 101,346 - -0.4 101,352 - +1.0 101,367 + +2.9 101,372 - -2.0 101,420 + +0.3 101,420 + -1.7 101,454 + -2.3 101,529 - -2.0 101,601 + HMPREF1058_RS21490 0.43 +0.9 101,603 + HMPREF1058_RS21490 0.44 +2.0 101,606 + HMPREF1058_RS21490 0.47 +3.1 101,622 + HMPREF1058_RS21490 0.58 +0.9 101,623 - HMPREF1058_RS21490 0.58 -0.7 101,689 + +0.6 101,721 - +0.0 101,814 + -1.2 101,815 - -1.0 101,870 + +2.9 101,870 + -1.7 101,929 + +0.3 101,982 + -0.3 102,015 - -1.7 102,084 - -0.7 102,114 - -1.3 102,176 + +0.4 102,213 + +0.6 102,232 - -2.5 102,284 + HMPREF1058_RS0119835 0.12 -0.2 102,287 - HMPREF1058_RS0119835 0.12 +2.0 102,511 - HMPREF1058_RS0119835 0.30 +0.5 102,553 + HMPREF1058_RS0119835 0.33 -3.3 102,566 + HMPREF1058_RS0119835 0.34 -1.3 102,588 - HMPREF1058_RS0119835 0.36 -0.7 102,664 - HMPREF1058_RS0119835 0.42 +0.3 102,664 - HMPREF1058_RS0119835 0.42 -0.1 102,714 + HMPREF1058_RS0119835 0.46 +4.2 102,715 - HMPREF1058_RS0119835 0.46 -0.7 102,801 - HMPREF1058_RS0119835 0.53 -0.2 102,801 - HMPREF1058_RS0119835 0.53 +4.0 102,803 - HMPREF1058_RS0119835 0.53 +0.3 102,998 + HMPREF1058_RS0119835 0.69 -0.7 103,191 + HMPREF1058_RS0119835 0.84 +0.5 103,211 + HMPREF1058_RS0119835 0.85 -1.7 103,230 + HMPREF1058_RS0119835 0.87 -0.9 103,330 + -1.3 103,378 + +0.5 103,378 + +1.2 103,378 + -0.8 103,378 + +1.7 103,379 - +0.3 103,379 - -0.6 103,379 - -1.7 103,379 - -1.4 103,379 - +2.3 103,379 - +0.9 103,379 - -1.3 103,379 - -0.2 103,379 - +0.3 103,382 + -1.1 103,383 - +1.3 103,384 + -0.4 103,505 - HMPREF1058_RS05695 0.33 +1.2 103,512 - HMPREF1058_RS05695 0.35 +1.2 103,645 - HMPREF1058_RS05695 0.77 -3.1 103,707 + -1.7 103,733 - +0.3 103,737 + +2.9 103,762 - -0.8 103,765 + -1.0 103,807 - -0.0 103,810 - -0.3 103,822 + -2.4 103,859 - +1.6 103,860 - +1.8 103,903 + HMPREF1058_RS05690 0.15 +0.1 103,903 + HMPREF1058_RS05690 0.15 -1.3 103,964 - HMPREF1058_RS05690 0.37 +0.9 103,987 + HMPREF1058_RS05690 0.45 +1.1 104,156 + -0.1 104,204 - -0.0
Or see this region's nucleotide sequence