Experiment: Experiment:TE, Cucumber 5 Main Stem Xylem (TE-S-C5-SX)
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_RS03200 and LU632_RS03205 are separated by 240 nucleotides LU632_RS03205 and LU632_RS03210 are separated by 67 nucleotides LU632_RS03210 and sctJ are separated by 5 nucleotides sctJ and LU632_RS03220 overlap by 8 nucleotides
LU632_RS03200: LU632_RS03200 - sigma-54 dependent transcriptional regulator, at 655,613 to 656,590
_RS03200
LU632_RS03205: LU632_RS03205 - hypothetical protein, at 656,831 to 657,034
_RS03205
LU632_RS03210: LU632_RS03210 - EscI/YscI/HrpB family type III secretion system inner rod protein, at 657,102 to 657,467
_RS03210
LU632_RS03215: sctJ - type III secretion inner membrane ring lipoprotein SctJ, at 657,473 to 658,249
sctJ
LU632_RS03220: LU632_RS03220 - hypothetical protein, at 658,242 to 658,832
_RS03220
Position (kb) 657
658 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3
4
5
6
7
8 at 656.153 kb on + strand, within LU632_RS03200 at 656.153 kb on + strand, within LU632_RS03200 at 656.153 kb on + strand, within LU632_RS03200 at 656.165 kb on - strand, within LU632_RS03200 at 656.165 kb on - strand, within LU632_RS03200 at 656.215 kb on + strand, within LU632_RS03200 at 656.215 kb on + strand, within LU632_RS03200 at 656.216 kb on - strand, within LU632_RS03200 at 656.230 kb on + strand, within LU632_RS03200 at 656.314 kb on + strand, within LU632_RS03200 at 656.314 kb on + strand, within LU632_RS03200 at 656.559 kb on + strand at 656.559 kb on + strand at 656.560 kb on - strand at 656.578 kb on + strand at 656.578 kb on + strand at 656.578 kb on + strand at 656.579 kb on - strand at 656.579 kb on - strand at 656.671 kb on + strand at 656.672 kb on - strand at 656.672 kb on - strand at 656.767 kb on + strand at 656.767 kb on + strand at 656.767 kb on + strand at 656.768 kb on - strand at 656.770 kb on + strand at 656.772 kb on + strand at 656.805 kb on + strand at 656.862 kb on + strand, within LU632_RS03205 at 656.950 kb on + strand, within LU632_RS03205 at 656.951 kb on - strand, within LU632_RS03205 at 656.961 kb on + strand, within LU632_RS03205 at 656.962 kb on - strand, within LU632_RS03205 at 656.962 kb on - strand, within LU632_RS03205 at 656.962 kb on - strand, within LU632_RS03205 at 656.962 kb on - strand, within LU632_RS03205 at 657.017 kb on - strand at 657.152 kb on + strand, within LU632_RS03210 at 657.211 kb on + strand, within LU632_RS03210 at 657.269 kb on + strand, within LU632_RS03210 at 657.478 kb on + strand at 657.479 kb on - strand at 657.504 kb on + strand at 657.504 kb on + strand at 657.610 kb on + strand, within sctJ at 657.684 kb on + strand, within sctJ at 657.684 kb on + strand, within sctJ at 657.685 kb on - strand, within sctJ at 657.688 kb on + strand, within sctJ at 657.689 kb on - strand, within sctJ at 657.689 kb on - strand, within sctJ at 657.728 kb on - strand, within sctJ at 657.797 kb on + strand, within sctJ at 657.797 kb on + strand, within sctJ at 657.798 kb on - strand, within sctJ at 657.798 kb on - strand, within sctJ at 657.928 kb on + strand, within sctJ at 657.931 kb on + strand, within sctJ at 657.931 kb on + strand, within sctJ at 657.932 kb on - strand, within sctJ at 657.973 kb on + strand, within sctJ at 657.974 kb on - strand, within sctJ at 658.061 kb on + strand, within sctJ at 658.062 kb on - strand, within sctJ at 658.099 kb on + strand, within sctJ at 658.099 kb on + strand, within sctJ at 658.099 kb on + strand, within sctJ at 658.100 kb on - strand, within sctJ at 658.100 kb on - strand, within sctJ at 658.148 kb on - strand, within sctJ at 658.182 kb on + strand at 658.183 kb on - strand
Per-strain Table
Position Strand Gene LocusTag Fraction Experiment:TE, Cucumber 5 Main Stem Xylem (TE-S-C5-SX) remove 656,153 + LU632_RS03200 0.55 +2.7 656,153 + LU632_RS03200 0.55 +2.6 656,153 + LU632_RS03200 0.55 +1.3 656,165 - LU632_RS03200 0.56 +8.5 656,165 - LU632_RS03200 0.56 +2.4 656,215 + LU632_RS03200 0.62 +2.3 656,215 + LU632_RS03200 0.62 +0.6 656,216 - LU632_RS03200 0.62 +0.5 656,230 + LU632_RS03200 0.63 -1.0 656,314 + LU632_RS03200 0.72 +1.5 656,314 + LU632_RS03200 0.72 +3.3 656,559 + -1.2 656,559 + +2.1 656,560 - +3.8 656,578 + +0.1 656,578 + -0.6 656,578 + -0.3 656,579 - +4.5 656,579 - -2.8 656,671 + +1.1 656,672 - +0.1 656,672 - +2.7 656,767 + +1.5 656,767 + -1.2 656,767 + -2.4 656,768 - -1.2 656,770 + -0.3 656,772 + +0.7 656,805 + -1.5 656,862 + LU632_RS03205 0.15 -0.2 656,950 + LU632_RS03205 0.58 -0.9 656,951 - LU632_RS03205 0.59 -0.7 656,961 + LU632_RS03205 0.64 -0.7 656,962 - LU632_RS03205 0.64 -0.9 656,962 - LU632_RS03205 0.64 +0.5 656,962 - LU632_RS03205 0.64 -0.5 656,962 - LU632_RS03205 0.64 -2.5 657,017 - -1.8 657,152 + LU632_RS03210 0.14 -0.0 657,211 + LU632_RS03210 0.30 +0.0 657,269 + LU632_RS03210 0.46 -0.7 657,478 + -1.9 657,479 - -0.9 657,504 + -0.7 657,504 + -1.6 657,610 + sctJ LU632_RS03215 0.18 -2.7 657,684 + sctJ LU632_RS03215 0.27 -0.2 657,684 + sctJ LU632_RS03215 0.27 -1.3 657,685 - sctJ LU632_RS03215 0.27 -1.2 657,688 + sctJ LU632_RS03215 0.28 +0.3 657,689 - sctJ LU632_RS03215 0.28 -2.1 657,689 - sctJ LU632_RS03215 0.28 -0.8 657,728 - sctJ LU632_RS03215 0.33 -2.3 657,797 + sctJ LU632_RS03215 0.42 -2.3 657,797 + sctJ LU632_RS03215 0.42 +1.9 657,798 - sctJ LU632_RS03215 0.42 +0.8 657,798 - sctJ LU632_RS03215 0.42 -3.3 657,928 + sctJ LU632_RS03215 0.59 +0.1 657,931 + sctJ LU632_RS03215 0.59 -1.1 657,931 + sctJ LU632_RS03215 0.59 +0.8 657,932 - sctJ LU632_RS03215 0.59 -0.3 657,973 + sctJ LU632_RS03215 0.64 -1.4 657,974 - sctJ LU632_RS03215 0.64 -1.4 658,061 + sctJ LU632_RS03215 0.76 -0.5 658,062 - sctJ LU632_RS03215 0.76 -1.6 658,099 + sctJ LU632_RS03215 0.81 +0.1 658,099 + sctJ LU632_RS03215 0.81 -0.9 658,099 + sctJ LU632_RS03215 0.81 +1.5 658,100 - sctJ LU632_RS03215 0.81 +0.4 658,100 - sctJ LU632_RS03215 0.81 +1.2 658,148 - sctJ LU632_RS03215 0.87 -0.4 658,182 + +2.1 658,183 - -1.4
Or see this region's nucleotide sequence