Experiment: plant=Squash; plant sample=Q5; plant location=P2
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 sctC and LU632_RS03245 are separated by 14 nucleotides LU632_RS03245 and LU632_RS03250 overlap by 8 nucleotides LU632_RS03250 and LU632_RS03255 are separated by 189 nucleotides LU632_RS03255 and LU632_RS03260 are separated by 1 nucleotides LU632_RS03260 and LU632_RS03265 overlap by 4 nucleotides
LU632_RS03240: sctC - type III secretion system outer membrane ring subunit SctC, at 660,144 to 662,168
sctC
LU632_RS03245: LU632_RS03245 - hypothetical protein, at 662,183 to 662,377
_RS03245
LU632_RS03250: LU632_RS03250 - type III secretion system protein, at 662,370 to 662,720
_RS03250
LU632_RS03255: LU632_RS03255 - harpin HrpZ family protein, at 662,910 to 664,127
_RS03255
LU632_RS03260: LU632_RS03260 - type III secretion system chaperone, at 664,129 to 664,704
_RS03260
LU632_RS03265: LU632_RS03265 - avirulence protein, at 664,701 to 665,930
_RS03265
Position (kb) 662
663
664
665 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3 at 661.918 kb on + strand, within sctC at 661.918 kb on + strand, within sctC at 661.919 kb on - strand, within sctC at 661.919 kb on - strand, within sctC at 661.919 kb on - strand, within sctC at 661.945 kb on - strand, within sctC at 662.049 kb on - strand at 662.049 kb on - strand at 662.075 kb on + strand at 662.106 kb on + strand at 662.107 kb on - strand at 662.107 kb on - strand at 662.107 kb on - strand at 662.108 kb on + strand at 662.109 kb on - strand at 662.109 kb on - strand at 662.303 kb on + strand, within LU632_RS03245 at 662.303 kb on + strand, within LU632_RS03245 at 662.375 kb on + strand at 662.483 kb on + strand, within LU632_RS03250 at 662.557 kb on + strand, within LU632_RS03250 at 662.606 kb on + strand, within LU632_RS03250 at 662.890 kb on - strand at 662.905 kb on - strand at 662.909 kb on + strand at 662.924 kb on + strand at 662.942 kb on + strand at 662.943 kb on - strand at 662.975 kb on + strand at 662.975 kb on + strand at 662.976 kb on - strand at 662.976 kb on - strand at 662.979 kb on - strand at 662.979 kb on - strand at 662.979 kb on - strand at 663.017 kb on + strand at 663.017 kb on + strand at 663.018 kb on - strand at 663.059 kb on + strand, within LU632_RS03255 at 663.059 kb on + strand, within LU632_RS03255 at 663.065 kb on + strand, within LU632_RS03255 at 663.247 kb on + strand, within LU632_RS03255 at 663.248 kb on - strand, within LU632_RS03255 at 663.256 kb on + strand, within LU632_RS03255 at 663.256 kb on + strand, within LU632_RS03255 at 663.328 kb on + strand, within LU632_RS03255 at 663.435 kb on - strand, within LU632_RS03255 at 663.463 kb on + strand, within LU632_RS03255 at 663.463 kb on + strand, within LU632_RS03255 at 663.859 kb on - strand, within LU632_RS03255 at 663.955 kb on + strand, within LU632_RS03255 at 663.955 kb on + strand, within LU632_RS03255 at 663.955 kb on + strand, within LU632_RS03255 at 663.955 kb on + strand, within LU632_RS03255 at 663.955 kb on + strand, within LU632_RS03255 at 663.955 kb on + strand, within LU632_RS03255 at 663.955 kb on + strand, within LU632_RS03255 at 663.955 kb on + strand, within LU632_RS03255 at 663.955 kb on + strand, within LU632_RS03255 at 663.956 kb on - strand, within LU632_RS03255 at 663.956 kb on - strand, within LU632_RS03255 at 663.956 kb on - strand, within LU632_RS03255 at 663.956 kb on - strand, within LU632_RS03255 at 664.095 kb on - strand at 664.210 kb on + strand, within LU632_RS03260 at 664.234 kb on - strand, within LU632_RS03260 at 664.354 kb on + strand, within LU632_RS03260 at 664.514 kb on + strand, within LU632_RS03260 at 664.515 kb on - strand, within LU632_RS03260 at 664.515 kb on - strand, within LU632_RS03260 at 664.616 kb on + strand, within LU632_RS03260 at 664.617 kb on - strand, within LU632_RS03260 at 664.637 kb on + strand, within LU632_RS03260 at 664.638 kb on - strand, within LU632_RS03260 at 664.708 kb on + strand at 664.730 kb on + strand at 664.730 kb on + strand at 664.731 kb on - strand at 664.731 kb on - strand at 664.851 kb on - strand, within LU632_RS03265 at 664.851 kb on - strand, within LU632_RS03265 at 664.853 kb on + strand, within LU632_RS03265 at 664.854 kb on - strand, within LU632_RS03265 at 664.981 kb on + strand, within LU632_RS03265 at 664.984 kb on + strand, within LU632_RS03265 at 664.985 kb on - strand, within LU632_RS03265 at 665.067 kb on - strand, within LU632_RS03265 at 665.067 kb on - strand, within LU632_RS03265
Per-strain Table
Position Strand Gene LocusTag Fraction plant=Squash; plant sample=Q5; plant location=P2 remove 661,918 + sctC LU632_RS03240 0.88 -0.6 661,918 + sctC LU632_RS03240 0.88 +1.2 661,919 - sctC LU632_RS03240 0.88 -0.8 661,919 - sctC LU632_RS03240 0.88 -2.1 661,919 - sctC LU632_RS03240 0.88 -0.8 661,945 - sctC LU632_RS03240 0.89 -0.7 662,049 - +1.1 662,049 - +0.6 662,075 + +3.1 662,106 + -0.8 662,107 - -0.0 662,107 - -1.4 662,107 - -0.6 662,108 + +0.4 662,109 - +0.1 662,109 - +1.1 662,303 + LU632_RS03245 0.62 -0.7 662,303 + LU632_RS03245 0.62 -0.7 662,375 + -0.0 662,483 + LU632_RS03250 0.32 -0.3 662,557 + LU632_RS03250 0.53 -1.2 662,606 + LU632_RS03250 0.67 -1.1 662,890 - -1.6 662,905 - -0.1 662,909 + -1.1 662,924 + +1.6 662,942 + -0.7 662,943 - +1.4 662,975 + -0.1 662,975 + +0.6 662,976 - +0.3 662,976 - +0.6 662,979 - -0.1 662,979 - -0.4 662,979 - +0.8 663,017 + +0.9 663,017 + +0.4 663,018 - +0.9 663,059 + LU632_RS03255 0.12 +1.2 663,059 + LU632_RS03255 0.12 +1.0 663,065 + LU632_RS03255 0.13 +0.1 663,247 + LU632_RS03255 0.28 +2.0 663,248 - LU632_RS03255 0.28 -2.8 663,256 + LU632_RS03255 0.28 -1.4 663,256 + LU632_RS03255 0.28 -1.3 663,328 + LU632_RS03255 0.34 +0.4 663,435 - LU632_RS03255 0.43 +1.1 663,463 + LU632_RS03255 0.45 +1.1 663,463 + LU632_RS03255 0.45 -0.3 663,859 - LU632_RS03255 0.78 +1.1 663,955 + LU632_RS03255 0.86 +0.0 663,955 + LU632_RS03255 0.86 +1.2 663,955 + LU632_RS03255 0.86 -0.0 663,955 + LU632_RS03255 0.86 +2.4 663,955 + LU632_RS03255 0.86 -0.7 663,955 + LU632_RS03255 0.86 +2.8 663,955 + LU632_RS03255 0.86 +0.4 663,955 + LU632_RS03255 0.86 -1.0 663,955 + LU632_RS03255 0.86 -1.9 663,956 - LU632_RS03255 0.86 +0.7 663,956 - LU632_RS03255 0.86 -0.6 663,956 - LU632_RS03255 0.86 +0.4 663,956 - LU632_RS03255 0.86 +1.4 664,095 - -0.8 664,210 + LU632_RS03260 0.14 +2.4 664,234 - LU632_RS03260 0.18 +3.4 664,354 + LU632_RS03260 0.39 -0.7 664,514 + LU632_RS03260 0.67 +0.1 664,515 - LU632_RS03260 0.67 +0.0 664,515 - LU632_RS03260 0.67 +0.2 664,616 + LU632_RS03260 0.85 -0.2 664,617 - LU632_RS03260 0.85 +0.3 664,637 + LU632_RS03260 0.88 -0.2 664,638 - LU632_RS03260 0.88 -1.5 664,708 + -1.3 664,730 + -2.5 664,730 + -2.1 664,731 - +0.4 664,731 - +1.1 664,851 - LU632_RS03265 0.12 -0.6 664,851 - LU632_RS03265 0.12 +1.2 664,853 + LU632_RS03265 0.12 -1.4 664,854 - LU632_RS03265 0.12 +0.9 664,981 + LU632_RS03265 0.23 +1.8 664,984 + LU632_RS03265 0.23 +0.4 664,985 - LU632_RS03265 0.23 -0.9 665,067 - LU632_RS03265 0.30 +1.9 665,067 - LU632_RS03265 0.30 -0.5
Or see this region's nucleotide sequence