Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse5; 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_RS09685 and HMPREF1058_RS09680 are separated by 141 nucleotides HMPREF1058_RS09680 and HMPREF1058_RS09675 are separated by 66 nucleotides HMPREF1058_RS09675 and HMPREF1058_RS09670 are separated by 32 nucleotides
HMPREF1058_RS09685: HMPREF1058_RS09685 - tetratricopeptide repeat protein, at 821,145 to 822,821
_RS09685
HMPREF1058_RS09680: HMPREF1058_RS09680 - site-specific tyrosine recombinase XerD, at 822,963 to 823,904
_RS09680
HMPREF1058_RS09675: HMPREF1058_RS09675 - type II 3-dehydroquinate dehydratase, at 823,971 to 824,393
_RS09675
HMPREF1058_RS09670: HMPREF1058_RS09670 - pyruvate kinase, at 824,426 to 825,889
_RS09670
Position (kb) 822
823
824 Strain fitness (log2 ratio) -5
-4
-3
-2
-1
0
1
2 at 821.985 kb on - strand, within HMPREF1058_RS09685 at 822.026 kb on - strand, within HMPREF1058_RS09685 at 822.026 kb on - strand, within HMPREF1058_RS09685 at 822.041 kb on + strand, within HMPREF1058_RS09685 at 822.079 kb on + strand, within HMPREF1058_RS09685 at 822.080 kb on - strand, within HMPREF1058_RS09685 at 822.182 kb on - strand, within HMPREF1058_RS09685 at 822.340 kb on + strand, within HMPREF1058_RS09685 at 822.416 kb on + strand, within HMPREF1058_RS09685 at 822.416 kb on + strand, within HMPREF1058_RS09685 at 822.417 kb on - strand, within HMPREF1058_RS09685 at 822.421 kb on + strand, within HMPREF1058_RS09685 at 822.488 kb on - strand, within HMPREF1058_RS09685 at 822.529 kb on + strand, within HMPREF1058_RS09685 at 822.530 kb on - strand, within HMPREF1058_RS09685 at 822.675 kb on - strand at 822.805 kb on + strand at 822.806 kb on - strand at 822.821 kb on + strand at 822.825 kb on + strand at 822.825 kb on + strand at 822.825 kb on + strand at 822.826 kb on - strand at 822.861 kb on + strand at 822.863 kb on + strand at 822.899 kb on - strand at 822.913 kb on + strand at 822.914 kb on - strand at 822.915 kb on + strand at 822.915 kb on + strand at 822.915 kb on + strand at 822.916 kb on - strand at 822.916 kb on - strand at 822.983 kb on + strand at 823.039 kb on - strand at 823.055 kb on + strand at 823.100 kb on + strand, within HMPREF1058_RS09680 at 823.100 kb on + strand, within HMPREF1058_RS09680 at 823.101 kb on - strand, within HMPREF1058_RS09680 at 823.101 kb on - strand, within HMPREF1058_RS09680 at 823.101 kb on - strand, within HMPREF1058_RS09680 at 823.101 kb on - strand at 823.321 kb on + strand, within HMPREF1058_RS09680 at 823.355 kb on + strand, within HMPREF1058_RS09680 at 823.377 kb on - strand, within HMPREF1058_RS09680 at 823.469 kb on - strand, within HMPREF1058_RS09680 at 823.543 kb on - strand, within HMPREF1058_RS09680 at 823.810 kb on + strand at 823.810 kb on + strand at 823.811 kb on - strand at 823.819 kb on - strand at 823.856 kb on - strand at 823.959 kb on + strand at 823.964 kb on + strand at 823.966 kb on + strand at 823.997 kb on + strand at 824.078 kb on + strand, within HMPREF1058_RS09675 at 824.193 kb on + strand, within HMPREF1058_RS09675 at 824.195 kb on + strand, within HMPREF1058_RS09675 at 824.201 kb on + strand, within HMPREF1058_RS09675 at 824.201 kb on + strand, within HMPREF1058_RS09675 at 824.201 kb on + strand, within HMPREF1058_RS09675 at 824.400 kb on + strand at 824.409 kb on + strand at 824.409 kb on + strand at 824.425 kb on + strand at 824.512 kb on + strand at 824.734 kb on + strand
Per-strain Table
Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse5; day3 remove 821,985 - HMPREF1058_RS09685 0.50 -4.7 822,026 - HMPREF1058_RS09685 0.53 -1.6 822,026 - HMPREF1058_RS09685 0.53 -1.0 822,041 + HMPREF1058_RS09685 0.53 -3.0 822,079 + HMPREF1058_RS09685 0.56 -2.3 822,080 - HMPREF1058_RS09685 0.56 -2.3 822,182 - HMPREF1058_RS09685 0.62 -0.9 822,340 + HMPREF1058_RS09685 0.71 -2.0 822,416 + HMPREF1058_RS09685 0.76 -3.9 822,416 + HMPREF1058_RS09685 0.76 -3.5 822,417 - HMPREF1058_RS09685 0.76 -3.8 822,421 + HMPREF1058_RS09685 0.76 -1.7 822,488 - HMPREF1058_RS09685 0.80 -3.5 822,529 + HMPREF1058_RS09685 0.83 -4.6 822,530 - HMPREF1058_RS09685 0.83 -2.8 822,675 - -2.8 822,805 + -2.0 822,806 - -2.4 822,821 + -2.4 822,825 + -3.2 822,825 + -4.0 822,825 + -1.0 822,826 - -3.0 822,861 + -2.6 822,863 + -1.6 822,899 - +1.8 822,913 + -2.8 822,914 - +1.1 822,915 + -3.8 822,915 + -1.6 822,915 + -2.4 822,916 - -0.8 822,916 - -0.7 822,983 + -1.6 823,039 - -1.6 823,055 + -2.4 823,100 + HMPREF1058_RS09680 0.15 -2.8 823,100 + HMPREF1058_RS09680 0.15 -2.4 823,101 - HMPREF1058_RS09680 0.15 -0.0 823,101 - HMPREF1058_RS09680 0.15 -1.6 823,101 - HMPREF1058_RS09680 0.15 -1.6 823,101 - -0.0 823,321 + HMPREF1058_RS09680 0.38 -1.0 823,355 + HMPREF1058_RS09680 0.42 -2.4 823,377 - HMPREF1058_RS09680 0.44 -3.0 823,469 - HMPREF1058_RS09680 0.54 -3.6 823,543 - HMPREF1058_RS09680 0.62 -1.8 823,810 + -1.8 823,810 + -3.7 823,811 - -2.0 823,819 - -2.1 823,856 - -1.0 823,959 + +1.8 823,964 + -0.0 823,966 + +0.9 823,997 + -4.0 824,078 + HMPREF1058_RS09675 0.25 -4.9 824,193 + HMPREF1058_RS09675 0.52 -1.6 824,195 + HMPREF1058_RS09675 0.53 -1.6 824,201 + HMPREF1058_RS09675 0.54 -4.4 824,201 + HMPREF1058_RS09675 0.54 -4.7 824,201 + HMPREF1058_RS09675 0.54 -3.9 824,400 + +1.1 824,409 + +0.0 824,409 + +1.3 824,425 + -1.0 824,512 + -1.6 824,734 + -1.0
Or see this region's nucleotide sequence