Experiment: HBM-CucXylem
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 LU632_RS00420 and sctJ overlap by 4 nucleotides sctJ and sctI overlap by 1 nucleotides sctI and sctF are separated by 54 nucleotides sctF and LU632_RS00440 are separated by 3 nucleotides
LU632_RS00420: LU632_RS00420 - type III secretion system protein, at 87,621 to 88,175
_RS00420
LU632_RS00425: sctJ - type III secretion inner membrane ring lipoprotein SctJ, at 88,172 to 88,942
sctJ
LU632_RS00430: sctI - type III secretion system inner rod subunit SctI, at 88,942 to 89,265
sctI
LU632_RS00435: sctF - type III secretion system needle filament subunit SctF, at 89,320 to 89,592
sctF
LU632_RS00440: LU632_RS00440 - PrgH/EprH family type III secretion apparatus protein, at 89,596 to 90,849
_RS00440
Position (kb) 88
89
90 Strain fitness (log2 ratio) -2
-1
0
1 at 87.960 kb on + strand, within LU632_RS00420 at 88.556 kb on - strand, within sctJ at 88.619 kb on - strand, within sctJ at 88.711 kb on - strand, within sctJ at 88.740 kb on - strand, within sctJ at 88.759 kb on + strand, within sctJ at 88.766 kb on - strand, within sctJ at 88.804 kb on + strand, within sctJ at 89.423 kb on + strand, within sctF at 89.584 kb on + strand at 89.669 kb on + strand at 89.669 kb on + strand at 89.669 kb on + strand at 89.670 kb on - strand at 89.851 kb on + strand, within LU632_RS00440 at 89.911 kb on - strand, within LU632_RS00440 at 89.914 kb on + strand, within LU632_RS00440 at 90.144 kb on + strand, within LU632_RS00440 at 90.209 kb on - strand, within LU632_RS00440
Per-strain Table
Position Strand Gene LocusTag Fraction HBM-CucXylem remove 87,960 + LU632_RS00420 0.61 +1.1 88,556 - sctJ LU632_RS00425 0.50 +0.2 88,619 - sctJ LU632_RS00425 0.58 -0.2 88,711 - sctJ LU632_RS00425 0.70 -0.5 88,740 - sctJ LU632_RS00425 0.74 -1.2 88,759 + sctJ LU632_RS00425 0.76 -2.3 88,766 - sctJ LU632_RS00425 0.77 +0.7 88,804 + sctJ LU632_RS00425 0.82 -0.1 89,423 + sctF LU632_RS00435 0.38 -0.4 89,584 + +0.0 89,669 + -0.2 89,669 + -0.5 89,669 + +0.1 89,670 - -0.2 89,851 + LU632_RS00440 0.20 +0.5 89,911 - LU632_RS00440 0.25 -0.4 89,914 + LU632_RS00440 0.25 -0.1 90,144 + LU632_RS00440 0.44 -0.1 90,209 - LU632_RS00440 0.49 +0.5
Or see this region's nucleotide sequence