Experiment: phi19h1_phage 15 MOI
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 GFF4744 and GFF4745 are separated by 10 nucleotides GFF4745 and GFF4746 are separated by 26 nucleotides GFF4746 and GFF4747 are separated by 79 nucleotides GFF4747 and GFF4748 are separated by 18 nucleotides
GFF4744 - Type III secretion injected virulence protein (YopH,tyrosine phosphatase of FAK and p130cas, prevents phagocytosis), at 51,854 to 53,461
GFF4744
GFF4745 - secretion chaparone, at 53,472 to 53,864
GFF4745
GFF4746 - doubtful CDS found within S. typhi pathogenicity island, at 53,891 to 54,115
GFF4746
GFF4747 - Acyl carrier protein, at 54,195 to 54,443
GFF4747
GFF4748 - Type III secretion injected virulence protein (YopE), at 54,462 to 56,474
GFF4748
Position (kb) 53
54 Strain fitness (log2 ratio) -2
-1
0
1
2 at 52.484 kb on - strand, within GFF4744 at 52.535 kb on - strand, within GFF4744 at 52.793 kb on - strand, within GFF4744 at 52.793 kb on - strand, within GFF4744 at 53.709 kb on - strand, within GFF4745 at 54.377 kb on + strand, within GFF4747 at 54.378 kb on - strand, within GFF4747 at 54.535 kb on + strand at 54.587 kb on + strand at 54.615 kb on + strand at 54.690 kb on - strand, within GFF4748
Per-strain Table
Position Strand Gene LocusTag Fraction phi19h1_phage 15 MOI remove 52,484 - GFF4744 0.39 -1.4 52,535 - GFF4744 0.42 +0.8 52,793 - GFF4744 0.58 -0.6 52,793 - GFF4744 0.58 +0.9 53,709 - GFF4745 0.60 -2.4 54,377 + GFF4747 0.73 +0.3 54,378 - GFF4747 0.73 -1.6 54,535 + -0.2 54,587 + -0.5 54,615 + +2.1 54,690 - GFF4748 0.11 -0.3
Or see this region's nucleotide sequence