Experiment: plant=Squash; plant sample=QP3; 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 LU632_RS00445 and sctC overlap by 8 nucleotides sctC and sctW are separated by 6 nucleotides
LU632_RS00445: LU632_RS00445 - helix-turn-helix domain-containing protein, at 91,150 to 92,028
_RS00445
LU632_RS00450: sctC - type III secretion system outer membrane ring subunit SctC, at 92,021 to 93,793
sctC
LU632_RS00455: sctW - type III secretion system gatekeeper subunit SctW, at 93,800 to 94,921
sctW
Position (kb) 92
93
94 Strain fitness (log2 ratio) -2
-1
0
1
2 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 at 91.881 kb on - strand, within LU632_RS00445 at 91.888 kb on - strand, within LU632_RS00445 at 91.900 kb on - strand, within LU632_RS00445 at 91.900 kb on - strand, within LU632_RS00445 at 92.177 kb on + strand at 92.363 kb on - strand, within sctC at 92.368 kb on + strand, within sctC at 92.378 kb on + strand, within sctC at 92.387 kb on - strand, within sctC at 92.536 kb on - strand, within sctC at 92.537 kb on + strand, within sctC at 92.537 kb on + strand, within sctC at 92.541 kb on + strand, within sctC at 92.568 kb on - strand, within sctC at 92.568 kb on - strand, within sctC at 92.569 kb on + strand, within sctC at 92.582 kb on + strand, within sctC at 92.583 kb on + strand, within sctC at 92.623 kb on + strand, within sctC at 92.657 kb on + strand, within sctC at 92.657 kb on + strand, within sctC at 92.658 kb on - strand, within sctC at 92.661 kb on + strand, within sctC at 92.662 kb on - strand, within sctC at 92.671 kb on + strand, within sctC at 92.710 kb on + strand, within sctC at 92.710 kb on + strand, within sctC at 92.722 kb on + strand, within sctC at 92.767 kb on - strand, within sctC at 92.771 kb on - strand, within sctC at 92.822 kb on + strand, within sctC at 92.905 kb on + strand, within sctC at 93.031 kb on + strand, within sctC at 93.033 kb on + strand, within sctC at 93.033 kb on + strand, within sctC at 93.033 kb on + strand, within sctC at 93.034 kb on - strand, within sctC at 93.034 kb on - strand, within sctC at 93.034 kb on - strand, within sctC at 93.037 kb on + strand, within sctC at 93.037 kb on + strand, within sctC at 93.037 kb on + strand, within sctC at 93.037 kb on + strand, within sctC at 93.037 kb on + strand, within sctC at 93.038 kb on - strand, within sctC at 93.038 kb on - strand, within sctC at 93.039 kb on + strand, within sctC at 93.039 kb on + strand, within sctC at 93.040 kb on - strand, within sctC at 93.040 kb on - strand, within sctC at 93.040 kb on - strand, within sctC at 93.059 kb on - strand, within sctC at 93.217 kb on - strand, within sctC at 93.217 kb on - strand, within sctC at 93.221 kb on - strand, within sctC at 93.253 kb on + strand, within sctC at 93.253 kb on + strand, within sctC at 93.254 kb on - strand, within sctC at 93.254 kb on - strand, within sctC at 93.256 kb on + strand, within sctC at 93.256 kb on + strand, within sctC at 93.271 kb on + strand, within sctC at 93.271 kb on + strand, within sctC at 93.271 kb on + strand, within sctC at 93.272 kb on - strand, within sctC at 93.314 kb on + strand, within sctC at 93.315 kb on - strand, within sctC at 93.315 kb on - strand, within sctC at 93.315 kb on - strand, within sctC at 93.436 kb on + strand, within sctC at 93.454 kb on + strand, within sctC at 93.515 kb on + strand, within sctC at 93.532 kb on + strand, within sctC at 93.599 kb on - strand, within sctC at 93.599 kb on - strand, within sctC at 93.599 kb on - strand, within sctC at 93.599 kb on - strand, within sctC at 93.602 kb on + strand, within sctC at 93.603 kb on - strand, within sctC at 93.603 kb on - strand, within sctC at 93.603 kb on - strand, within sctC at 93.655 kb on - strand at 93.731 kb on - strand at 93.806 kb on - strand at 94.009 kb on + strand, within sctW at 94.397 kb on - strand, within sctW at 94.472 kb on - strand, within sctW
Per-strain Table
Position Strand Gene LocusTag Fraction plant=Squash; plant sample=QP3; plant location=NA remove 91,272 + LU632_RS00445 0.14 -1.7 91,478 - LU632_RS00445 0.37 +0.1 91,553 + LU632_RS00445 0.46 -0.2 91,781 - LU632_RS00445 0.72 -0.3 91,881 - LU632_RS00445 0.83 +0.6 91,888 - LU632_RS00445 0.84 -0.6 91,900 - LU632_RS00445 0.85 +0.3 91,900 - LU632_RS00445 0.85 +0.1 92,177 + +0.8 92,363 - sctC LU632_RS00450 0.19 +0.3 92,368 + sctC LU632_RS00450 0.20 -1.0 92,378 + sctC LU632_RS00450 0.20 +1.4 92,387 - sctC LU632_RS00450 0.21 +0.1 92,536 - sctC LU632_RS00450 0.29 +0.6 92,537 + sctC LU632_RS00450 0.29 -0.1 92,537 + sctC LU632_RS00450 0.29 -0.0 92,541 + sctC LU632_RS00450 0.29 -0.5 92,568 - sctC LU632_RS00450 0.31 -0.7 92,568 - sctC LU632_RS00450 0.31 -0.2 92,569 + sctC LU632_RS00450 0.31 +0.1 92,582 + sctC LU632_RS00450 0.32 -0.3 92,583 + sctC LU632_RS00450 0.32 -0.9 92,623 + sctC LU632_RS00450 0.34 -0.7 92,657 + sctC LU632_RS00450 0.36 +0.5 92,657 + sctC LU632_RS00450 0.36 +0.4 92,658 - sctC LU632_RS00450 0.36 -0.1 92,661 + sctC LU632_RS00450 0.36 +0.5 92,662 - sctC LU632_RS00450 0.36 +0.3 92,671 + sctC LU632_RS00450 0.37 +0.3 92,710 + sctC LU632_RS00450 0.39 +0.2 92,710 + sctC LU632_RS00450 0.39 +0.6 92,722 + sctC LU632_RS00450 0.40 -0.5 92,767 - sctC LU632_RS00450 0.42 +0.3 92,771 - sctC LU632_RS00450 0.42 -1.2 92,822 + sctC LU632_RS00450 0.45 -0.5 92,905 + sctC LU632_RS00450 0.50 +0.5 93,031 + sctC LU632_RS00450 0.57 -0.7 93,033 + sctC LU632_RS00450 0.57 -0.7 93,033 + sctC LU632_RS00450 0.57 +0.1 93,033 + sctC LU632_RS00450 0.57 +0.5 93,034 - sctC LU632_RS00450 0.57 +0.0 93,034 - sctC LU632_RS00450 0.57 +0.2 93,034 - sctC LU632_RS00450 0.57 -0.4 93,037 + sctC LU632_RS00450 0.57 +0.0 93,037 + sctC LU632_RS00450 0.57 +1.6 93,037 + sctC LU632_RS00450 0.57 -2.0 93,037 + sctC LU632_RS00450 0.57 +0.0 93,037 + sctC LU632_RS00450 0.57 +0.1 93,038 - sctC LU632_RS00450 0.57 +0.5 93,038 - sctC LU632_RS00450 0.57 -1.9 93,039 + sctC LU632_RS00450 0.57 +0.2 93,039 + sctC LU632_RS00450 0.57 -0.0 93,040 - sctC LU632_RS00450 0.57 -1.1 93,040 - sctC LU632_RS00450 0.57 +1.1 93,040 - sctC LU632_RS00450 0.57 +0.2 93,059 - sctC LU632_RS00450 0.59 +0.6 93,217 - sctC LU632_RS00450 0.67 -0.1 93,217 - sctC LU632_RS00450 0.67 +0.4 93,221 - sctC LU632_RS00450 0.68 +0.1 93,253 + sctC LU632_RS00450 0.69 -1.5 93,253 + sctC LU632_RS00450 0.69 -0.5 93,254 - sctC LU632_RS00450 0.70 +1.1 93,254 - sctC LU632_RS00450 0.70 +0.4 93,256 + sctC LU632_RS00450 0.70 -1.0 93,256 + sctC LU632_RS00450 0.70 -0.8 93,271 + sctC LU632_RS00450 0.71 +1.0 93,271 + sctC LU632_RS00450 0.71 -0.2 93,271 + sctC LU632_RS00450 0.71 +0.6 93,272 - sctC LU632_RS00450 0.71 -1.4 93,314 + sctC LU632_RS00450 0.73 +0.1 93,315 - sctC LU632_RS00450 0.73 +0.1 93,315 - sctC LU632_RS00450 0.73 +1.1 93,315 - sctC LU632_RS00450 0.73 +0.7 93,436 + sctC LU632_RS00450 0.80 +2.6 93,454 + sctC LU632_RS00450 0.81 -0.6 93,515 + sctC LU632_RS00450 0.84 -2.7 93,532 + sctC LU632_RS00450 0.85 -0.8 93,599 - sctC LU632_RS00450 0.89 -0.2 93,599 - sctC LU632_RS00450 0.89 +0.3 93,599 - sctC LU632_RS00450 0.89 +1.0 93,599 - sctC LU632_RS00450 0.89 -1.1 93,602 + sctC LU632_RS00450 0.89 -0.3 93,603 - sctC LU632_RS00450 0.89 -0.9 93,603 - sctC LU632_RS00450 0.89 +1.5 93,603 - sctC LU632_RS00450 0.89 +0.8 93,655 - -0.4 93,731 - +2.6 93,806 - +0.6 94,009 + sctW LU632_RS00455 0.19 -0.5 94,397 - sctW LU632_RS00455 0.53 -0.3 94,472 - sctW LU632_RS00455 0.60 +1.0
Or see this region's nucleotide sequence