Experiment: plant=Squash; plant sample=QP1; plant location=NA
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 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_RS00440 and LU632_RS00445 are separated by 300 nucleotides
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
LU632_RS00445: LU632_RS00445 - helix-turn-helix domain-containing protein, at 91,150 to 92,028
_RS00445
Position (kb) 89
90
91 Strain fitness (log2 ratio) -2
-1
0
1 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 at 90.314 kb on - strand, within LU632_RS00440 at 90.314 kb on - strand, within LU632_RS00440 at 90.372 kb on + strand, within LU632_RS00440 at 90.637 kb on - strand, within LU632_RS00440 at 90.789 kb on - strand at 91.272 kb on + strand, within LU632_RS00445 at 91.478 kb on - strand, within LU632_RS00445 at 91.553 kb on + strand, within LU632_RS00445 at 91.781 kb on - strand, within LU632_RS00445
Per-strain Table
Position Strand Gene LocusTag Fraction plant=Squash; plant sample=QP1; plant location=NA remove 88,619 - sctJ LU632_RS00425 0.58 +1.0 88,711 - sctJ LU632_RS00425 0.70 -0.0 88,740 - sctJ LU632_RS00425 0.74 +0.3 88,759 + sctJ LU632_RS00425 0.76 -1.8 88,766 - sctJ LU632_RS00425 0.77 +0.7 88,804 + sctJ LU632_RS00425 0.82 +0.4 89,423 + sctF LU632_RS00435 0.38 -0.9 89,584 + -1.8 89,669 + +0.9 89,669 + -1.1 89,669 + +1.0 89,670 - -2.2 89,851 + LU632_RS00440 0.20 +0.2 89,911 - LU632_RS00440 0.25 +0.1 89,914 + LU632_RS00440 0.25 -1.4 90,144 + LU632_RS00440 0.44 -1.3 90,209 - LU632_RS00440 0.49 -0.5 90,314 - LU632_RS00440 0.57 -0.4 90,314 - LU632_RS00440 0.57 -0.7 90,372 + LU632_RS00440 0.62 -0.7 90,637 - LU632_RS00440 0.83 -0.2 90,789 - +1.4 91,272 + LU632_RS00445 0.14 -0.3 91,478 - LU632_RS00445 0.37 -0.1 91,553 + LU632_RS00445 0.46 +0.3 91,781 - LU632_RS00445 0.72 -0.0
Or see this region's nucleotide sequence