Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; day5
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_RS09040 and HMPREF1058_RS09035 are separated by 17 nucleotides HMPREF1058_RS09035 and HMPREF1058_RS09030 are separated by 228 nucleotides HMPREF1058_RS09030 and HMPREF1058_RS09025 are separated by 73 nucleotides HMPREF1058_RS09025 and HMPREF1058_RS09020 are separated by 8 nucleotides
HMPREF1058_RS09040: HMPREF1058_RS09040 - AAA family ATPase, at 958,111 to 960,339
_RS09040
HMPREF1058_RS09035: HMPREF1058_RS09035 - ATP-dependent Clp protease adaptor ClpS, at 960,357 to 960,665
_RS09035
HMPREF1058_RS09030: HMPREF1058_RS09030 - pyridoxamine 5'-phosphate oxidase family protein, at 960,894 to 961,301
_RS09030
HMPREF1058_RS09025: HMPREF1058_RS09025 - helix-turn-helix domain-containing protein, at 961,375 to 962,190
_RS09025
HMPREF1058_RS09020: HMPREF1058_RS09020 - hypothetical protein, at 962,199 to 962,885
_RS09020
Position (kb) 960
961
962 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3 at 960.058 kb on - strand, within HMPREF1058_RS09040 at 960.059 kb on + strand, within HMPREF1058_RS09040 at 960.060 kb on - strand, within HMPREF1058_RS09040 at 960.060 kb on - strand, within HMPREF1058_RS09040 at 960.060 kb on - strand, within HMPREF1058_RS09040 at 960.065 kb on + strand, within HMPREF1058_RS09040 at 960.066 kb on - strand, within HMPREF1058_RS09040 at 960.107 kb on + strand, within HMPREF1058_RS09040 at 960.241 kb on + strand at 960.242 kb on - strand at 960.331 kb on + strand at 960.332 kb on - strand at 960.340 kb on - strand at 960.451 kb on + strand, within HMPREF1058_RS09035 at 960.455 kb on + strand, within HMPREF1058_RS09035 at 960.455 kb on + strand, within HMPREF1058_RS09035 at 960.457 kb on + strand, within HMPREF1058_RS09035 at 960.465 kb on + strand, within HMPREF1058_RS09035 at 960.552 kb on + strand, within HMPREF1058_RS09035 at 960.590 kb on + strand, within HMPREF1058_RS09035 at 960.625 kb on - strand, within HMPREF1058_RS09035 at 960.641 kb on + strand at 960.684 kb on + strand at 960.685 kb on - strand at 960.688 kb on + strand at 960.722 kb on - strand at 960.814 kb on + strand at 960.815 kb on - strand at 960.815 kb on - strand at 960.815 kb on - strand at 960.815 kb on - strand at 960.816 kb on + strand at 960.816 kb on + strand at 960.817 kb on - strand at 960.818 kb on + strand at 960.821 kb on + strand at 960.822 kb on - strand at 960.849 kb on - strand at 960.967 kb on + strand, within HMPREF1058_RS09030 at 960.967 kb on + strand, within HMPREF1058_RS09030 at 961.101 kb on + strand, within HMPREF1058_RS09030 at 961.101 kb on + strand, within HMPREF1058_RS09030 at 961.102 kb on - strand, within HMPREF1058_RS09030 at 961.102 kb on - strand, within HMPREF1058_RS09030 at 961.230 kb on - strand, within HMPREF1058_RS09030 at 961.327 kb on + strand at 961.388 kb on + strand at 961.388 kb on + strand at 961.393 kb on + strand at 961.393 kb on + strand at 961.423 kb on + strand at 961.440 kb on + strand at 961.441 kb on - strand at 961.645 kb on + strand, within HMPREF1058_RS09025 at 961.645 kb on + strand, within HMPREF1058_RS09025 at 961.645 kb on + strand, within HMPREF1058_RS09025 at 961.703 kb on - strand, within HMPREF1058_RS09025 at 961.703 kb on - strand, within HMPREF1058_RS09025 at 961.703 kb on - strand, within HMPREF1058_RS09025 at 961.740 kb on + strand, within HMPREF1058_RS09025 at 961.745 kb on - strand, within HMPREF1058_RS09025 at 961.789 kb on + strand, within HMPREF1058_RS09025 at 961.789 kb on + strand, within HMPREF1058_RS09025 at 961.790 kb on - strand, within HMPREF1058_RS09025 at 961.939 kb on - strand, within HMPREF1058_RS09025 at 961.939 kb on - strand, within HMPREF1058_RS09025 at 961.939 kb on - strand, within HMPREF1058_RS09025 at 961.991 kb on - strand, within HMPREF1058_RS09025 at 962.019 kb on + strand, within HMPREF1058_RS09025 at 962.128 kb on - strand at 962.150 kb on + strand at 962.151 kb on - strand at 962.151 kb on - strand at 962.224 kb on - strand at 962.226 kb on + strand at 962.229 kb on + strand at 962.229 kb on + strand at 962.229 kb on + strand
Per-strain Table
Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; day5 remove 960,058 - HMPREF1058_RS09040 0.87 +0.3 960,059 + HMPREF1058_RS09040 0.87 +1.4 960,060 - HMPREF1058_RS09040 0.87 +0.9 960,060 - HMPREF1058_RS09040 0.87 -0.8 960,060 - HMPREF1058_RS09040 0.87 +1.4 960,065 + HMPREF1058_RS09040 0.88 +0.3 960,066 - HMPREF1058_RS09040 0.88 +1.3 960,107 + HMPREF1058_RS09040 0.90 +3.4 960,241 + +0.5 960,242 - -1.1 960,331 + +1.3 960,332 - +0.7 960,340 - -0.2 960,451 + HMPREF1058_RS09035 0.30 +0.4 960,455 + HMPREF1058_RS09035 0.32 +0.6 960,455 + HMPREF1058_RS09035 0.32 +2.4 960,457 + HMPREF1058_RS09035 0.32 +0.9 960,465 + HMPREF1058_RS09035 0.35 -0.4 960,552 + HMPREF1058_RS09035 0.63 -2.2 960,590 + HMPREF1058_RS09035 0.75 +0.4 960,625 - HMPREF1058_RS09035 0.87 +0.7 960,641 + -0.8 960,684 + +0.1 960,685 - -4.0 960,688 + +0.8 960,722 - -3.4 960,814 + -0.6 960,815 - +0.8 960,815 - +0.2 960,815 - -1.5 960,815 - -1.2 960,816 + -0.3 960,816 + -0.6 960,817 - -2.6 960,818 + +1.2 960,821 + -1.2 960,822 - -0.7 960,849 - +0.6 960,967 + HMPREF1058_RS09030 0.18 -0.3 960,967 + HMPREF1058_RS09030 0.18 +2.0 961,101 + HMPREF1058_RS09030 0.51 -2.4 961,101 + HMPREF1058_RS09030 0.51 -0.2 961,102 - HMPREF1058_RS09030 0.51 -0.0 961,102 - HMPREF1058_RS09030 0.51 -2.0 961,230 - HMPREF1058_RS09030 0.82 -0.5 961,327 + +0.8 961,388 + +0.3 961,388 + +0.4 961,393 + +0.4 961,393 + +1.2 961,423 + -0.2 961,440 + -0.8 961,441 - -1.2 961,645 + HMPREF1058_RS09025 0.33 +1.1 961,645 + HMPREF1058_RS09025 0.33 +1.5 961,645 + HMPREF1058_RS09025 0.33 -1.1 961,703 - HMPREF1058_RS09025 0.40 +0.3 961,703 - HMPREF1058_RS09025 0.40 +0.0 961,703 - HMPREF1058_RS09025 0.40 -2.1 961,740 + HMPREF1058_RS09025 0.45 +1.4 961,745 - HMPREF1058_RS09025 0.45 +0.2 961,789 + HMPREF1058_RS09025 0.51 -2.2 961,789 + HMPREF1058_RS09025 0.51 +0.8 961,790 - HMPREF1058_RS09025 0.51 +0.4 961,939 - HMPREF1058_RS09025 0.69 -3.0 961,939 - HMPREF1058_RS09025 0.69 +1.1 961,939 - HMPREF1058_RS09025 0.69 -0.6 961,991 - HMPREF1058_RS09025 0.75 +2.0 962,019 + HMPREF1058_RS09025 0.79 -0.9 962,128 - +0.1 962,150 + +0.1 962,151 - -0.6 962,151 - -0.3 962,224 - -0.9 962,226 + +0.7 962,229 + -2.5 962,229 + -1.8 962,229 + +0.1
Or see this region's nucleotide sequence