Experiment: MelonXylem
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) -1
0
1
2 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 MelonXylem remove 88,619 - sctJ LU632_RS00425 0.58 +0.3 88,711 - sctJ LU632_RS00425 0.70 -0.1 88,740 - sctJ LU632_RS00425 0.74 +0.1 88,759 + sctJ LU632_RS00425 0.76 -1.0 88,766 - sctJ LU632_RS00425 0.77 -1.3 88,804 + sctJ LU632_RS00425 0.82 -0.7 89,423 + sctF LU632_RS00435 0.38 -0.1 89,584 + +0.1 89,669 + +0.9 89,669 + -0.5 89,669 + -0.1 89,670 - -1.0 89,851 + LU632_RS00440 0.20 +0.4 89,911 - LU632_RS00440 0.25 -0.4 89,914 + LU632_RS00440 0.25 -0.3 90,144 + LU632_RS00440 0.44 -0.2 90,209 - LU632_RS00440 0.49 +0.5 90,314 - LU632_RS00440 0.57 -0.2 90,314 - LU632_RS00440 0.57 +0.5 90,372 + LU632_RS00440 0.62 +1.0 90,637 - LU632_RS00440 0.83 +2.0 90,789 - -0.0 91,272 + LU632_RS00445 0.14 -0.4 91,478 - LU632_RS00445 0.37 -0.4 91,553 + LU632_RS00445 0.46 -0.2 91,781 - LU632_RS00445 0.72 -0.2
Or see this region's nucleotide sequence