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 gspE and ppdD overlap by 1 nucleotides ppdD and nadC are separated by 195 nucleotides nadC and ampD are separated by 150 nucleotides ampD and ampE are separated by 39 nucleotides
LU632_RS03030: gspE - type II secretion system protein GspE, at 619,058 to 620,461
gspE
LU632_RS03035: ppdD - prepilin peptidase-dependent pilin, at 620,461 to 620,913
ppdD
LU632_RS03040: nadC - carboxylating nicotinate-nucleotide diphosphorylase, at 621,109 to 621,996
nadC
LU632_RS03045: ampD - 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD, at 622,147 to 622,697
ampD
LU632_RS03050: ampE - beta-lactamase regulator AmpE, at 622,737 to 623,545
ampE
Position (kb) 621
622 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3
4
5
6 at 620.134 kb on + strand, within gspE at 620.159 kb on - strand, within gspE at 620.159 kb on - strand, within gspE at 620.189 kb on + strand, within gspE at 620.218 kb on + strand, within gspE at 620.295 kb on + strand, within gspE at 620.305 kb on + strand, within gspE at 620.314 kb on + strand, within gspE at 620.315 kb on - strand, within gspE at 620.324 kb on - strand at 620.342 kb on + strand at 620.342 kb on + strand at 620.343 kb on - strand at 620.392 kb on + strand at 620.428 kb on + strand at 620.428 kb on + strand at 620.429 kb on - strand at 620.559 kb on + strand, within ppdD at 620.559 kb on + strand, within ppdD at 620.560 kb on - strand, within ppdD at 620.672 kb on + strand, within ppdD at 620.673 kb on - strand, within ppdD at 620.756 kb on - strand, within ppdD at 620.767 kb on - strand, within ppdD at 620.816 kb on + strand, within ppdD at 620.817 kb on - strand, within ppdD at 620.892 kb on + strand at 620.893 kb on - strand at 620.918 kb on + strand at 620.919 kb on - strand at 621.032 kb on - strand at 621.032 kb on - strand at 621.032 kb on - strand at 621.032 kb on - strand at 621.127 kb on + strand at 621.144 kb on + strand at 621.194 kb on + strand at 621.342 kb on + strand, within nadC at 621.343 kb on - strand, within nadC at 621.455 kb on + strand, within nadC at 621.506 kb on + strand, within nadC at 621.507 kb on - strand, within nadC at 621.541 kb on - strand, within nadC at 621.541 kb on - strand, within nadC at 621.587 kb on + strand, within nadC at 621.588 kb on - strand, within nadC at 621.588 kb on - strand, within nadC at 621.588 kb on - strand, within nadC at 621.588 kb on - strand, within nadC at 621.654 kb on + strand, within nadC at 621.817 kb on + strand, within nadC at 621.817 kb on + strand, within nadC at 621.850 kb on + strand, within nadC at 621.850 kb on + strand, within nadC at 621.850 kb on + strand, within nadC at 621.851 kb on - strand, within nadC at 621.930 kb on + strand at 621.952 kb on + strand at 621.960 kb on + strand at 622.146 kb on + strand at 622.248 kb on + strand, within ampD at 622.248 kb on + strand, within ampD at 622.248 kb on + strand, within ampD at 622.249 kb on - strand, within ampD at 622.251 kb on + strand, within ampD at 622.251 kb on + strand, within ampD at 622.251 kb on + strand, within ampD at 622.333 kb on + strand, within ampD at 622.334 kb on - strand, within ampD at 622.398 kb on + strand, within ampD at 622.405 kb on + strand, within ampD at 622.450 kb on - strand, within ampD at 622.451 kb on + strand, within ampD at 622.451 kb on + strand, within ampD at 622.452 kb on - strand, within ampD at 622.454 kb on - strand, within ampD at 622.471 kb on + strand, within ampD at 622.510 kb on + strand, within ampD at 622.511 kb on - strand, within ampD at 622.535 kb on + strand, within ampD at 622.535 kb on + strand, within ampD at 622.593 kb on + strand, within ampD at 622.593 kb on + strand, within ampD at 622.594 kb on - strand, within ampD at 622.594 kb on - strand, within ampD at 622.595 kb on + strand, within ampD at 622.595 kb on + strand, within ampD at 622.596 kb on - strand, within ampD at 622.596 kb on - strand, within ampD at 622.596 kb on - strand, within ampD at 622.596 kb on - strand, within ampD at 622.596 kb on - strand, within ampD at 622.596 kb on - strand, within ampD at 622.596 kb on - strand, within ampD at 622.598 kb on - strand, within ampD at 622.598 kb on - strand, within ampD at 622.613 kb on + strand, within ampD at 622.613 kb on + strand, within ampD at 622.616 kb on + strand, within ampD at 622.616 kb on + strand, within ampD at 622.617 kb on - strand, within ampD at 622.617 kb on - strand, within ampD at 622.617 kb on - strand, within ampD at 622.693 kb on + strand at 622.693 kb on + strand at 622.693 kb on + strand at 622.694 kb on - strand at 622.694 kb on - strand at 622.695 kb on + strand at 622.696 kb on - strand at 622.696 kb on - strand at 622.696 kb on - strand at 622.696 kb on - strand at 622.696 kb on - strand at 622.696 kb on - strand at 622.696 kb on - strand at 622.696 kb on - strand at 622.696 kb on - strand at 622.696 kb on - strand at 622.696 kb on - strand at 622.844 kb on + strand, within ampE at 622.953 kb on - strand, within ampE at 622.981 kb on - strand, within ampE at 622.989 kb on + strand, within ampE at 622.989 kb on + strand, within ampE at 622.989 kb on + strand, within ampE
Per-strain Table
Position Strand Gene LocusTag Fraction plant=Squash; plant sample=Q5; plant location=P2 remove 620,134 + gspE LU632_RS03030 0.77 -1.2 620,159 - gspE LU632_RS03030 0.78 -1.2 620,159 - gspE LU632_RS03030 0.78 -1.7 620,189 + gspE LU632_RS03030 0.81 +0.4 620,218 + gspE LU632_RS03030 0.83 +0.1 620,295 + gspE LU632_RS03030 0.88 +0.5 620,305 + gspE LU632_RS03030 0.89 +0.7 620,314 + gspE LU632_RS03030 0.89 +0.0 620,315 - gspE LU632_RS03030 0.90 -0.5 620,324 - +0.3 620,342 + -1.6 620,342 + -0.5 620,343 - +1.1 620,392 + -0.5 620,428 + -0.7 620,428 + -0.4 620,429 - -0.1 620,559 + ppdD LU632_RS03035 0.22 -1.0 620,559 + ppdD LU632_RS03035 0.22 -0.0 620,560 - ppdD LU632_RS03035 0.22 -1.7 620,672 + ppdD LU632_RS03035 0.47 +0.0 620,673 - ppdD LU632_RS03035 0.47 -0.6 620,756 - ppdD LU632_RS03035 0.65 -0.1 620,767 - ppdD LU632_RS03035 0.68 -1.5 620,816 + ppdD LU632_RS03035 0.78 -0.1 620,817 - ppdD LU632_RS03035 0.79 -1.0 620,892 + +0.3 620,893 - -2.6 620,918 + +1.5 620,919 - +1.5 621,032 - +0.0 621,032 - +6.0 621,032 - -0.2 621,032 - -0.6 621,127 + -2.0 621,144 + +0.2 621,194 + -0.5 621,342 + nadC LU632_RS03040 0.26 -0.5 621,343 - nadC LU632_RS03040 0.26 -0.7 621,455 + nadC LU632_RS03040 0.39 -0.2 621,506 + nadC LU632_RS03040 0.45 -0.3 621,507 - nadC LU632_RS03040 0.45 -1.6 621,541 - nadC LU632_RS03040 0.49 -0.5 621,541 - nadC LU632_RS03040 0.49 +0.1 621,587 + nadC LU632_RS03040 0.54 -2.0 621,588 - nadC LU632_RS03040 0.54 -0.9 621,588 - nadC LU632_RS03040 0.54 +0.3 621,588 - nadC LU632_RS03040 0.54 -0.2 621,588 - nadC LU632_RS03040 0.54 -0.9 621,654 + nadC LU632_RS03040 0.61 -0.1 621,817 + nadC LU632_RS03040 0.80 -0.9 621,817 + nadC LU632_RS03040 0.80 -1.5 621,850 + nadC LU632_RS03040 0.83 +0.1 621,850 + nadC LU632_RS03040 0.83 +0.2 621,850 + nadC LU632_RS03040 0.83 -2.0 621,851 - nadC LU632_RS03040 0.84 +0.4 621,930 + -0.1 621,952 + +0.4 621,960 + +0.5 622,146 + +0.5 622,248 + ampD LU632_RS03045 0.18 +0.6 622,248 + ampD LU632_RS03045 0.18 -1.4 622,248 + ampD LU632_RS03045 0.18 +1.1 622,249 - ampD LU632_RS03045 0.19 +1.5 622,251 + ampD LU632_RS03045 0.19 +2.5 622,251 + ampD LU632_RS03045 0.19 +2.5 622,251 + ampD LU632_RS03045 0.19 +1.6 622,333 + ampD LU632_RS03045 0.34 +1.5 622,334 - ampD LU632_RS03045 0.34 +1.9 622,398 + ampD LU632_RS03045 0.46 +0.1 622,405 + ampD LU632_RS03045 0.47 +0.7 622,450 - ampD LU632_RS03045 0.55 +1.5 622,451 + ampD LU632_RS03045 0.55 -0.2 622,451 + ampD LU632_RS03045 0.55 -0.5 622,452 - ampD LU632_RS03045 0.55 +0.6 622,454 - ampD LU632_RS03045 0.56 +1.0 622,471 + ampD LU632_RS03045 0.59 -0.1 622,510 + ampD LU632_RS03045 0.66 +0.7 622,511 - ampD LU632_RS03045 0.66 +0.1 622,535 + ampD LU632_RS03045 0.70 +3.8 622,535 + ampD LU632_RS03045 0.70 +5.2 622,593 + ampD LU632_RS03045 0.81 +1.0 622,593 + ampD LU632_RS03045 0.81 +3.6 622,594 - ampD LU632_RS03045 0.81 +0.6 622,594 - ampD LU632_RS03045 0.81 +0.3 622,595 + ampD LU632_RS03045 0.81 -0.4 622,595 + ampD LU632_RS03045 0.81 -1.1 622,596 - ampD LU632_RS03045 0.81 +0.6 622,596 - ampD LU632_RS03045 0.81 +1.5 622,596 - ampD LU632_RS03045 0.81 +1.7 622,596 - ampD LU632_RS03045 0.81 +0.2 622,596 - ampD LU632_RS03045 0.81 +1.5 622,596 - ampD LU632_RS03045 0.81 -0.1 622,596 - ampD LU632_RS03045 0.81 +0.1 622,598 - ampD LU632_RS03045 0.82 -0.4 622,598 - ampD LU632_RS03045 0.82 -1.0 622,613 + ampD LU632_RS03045 0.85 -2.8 622,613 + ampD LU632_RS03045 0.85 +2.5 622,616 + ampD LU632_RS03045 0.85 -0.1 622,616 + ampD LU632_RS03045 0.85 -0.3 622,617 - ampD LU632_RS03045 0.85 +0.9 622,617 - ampD LU632_RS03045 0.85 -0.3 622,617 - ampD LU632_RS03045 0.85 +0.6 622,693 + -0.3 622,693 + +0.9 622,693 + -0.1 622,694 - +1.3 622,694 - +0.9 622,695 + +0.4 622,696 - -0.1 622,696 - -0.7 622,696 - -0.8 622,696 - +0.3 622,696 - -0.7 622,696 - +0.5 622,696 - +2.9 622,696 - -2.1 622,696 - -0.4 622,696 - +0.1 622,696 - +0.5 622,844 + ampE LU632_RS03050 0.13 -1.2 622,953 - ampE LU632_RS03050 0.27 -1.9 622,981 - ampE LU632_RS03050 0.30 -0.5 622,989 + ampE LU632_RS03050 0.31 -0.9 622,989 + ampE LU632_RS03050 0.31 +2.6 622,989 + ampE LU632_RS03050 0.31 -0.4
Or see this region's nucleotide sequence