Experiment: Ying_OrganicAcid7 rep A; time point 3
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 Pf6N2E2_4541 and Pf6N2E2_4542 are separated by 206 nucleotides Pf6N2E2_4542 and Pf6N2E2_4543 are separated by 6 nucleotides Pf6N2E2_4543 and Pf6N2E2_4544 overlap by 4 nucleotides
Pf6N2E2_4541 - hypothetical protein, at 5,274,006 to 5,274,455
_4541
Pf6N2E2_4542 - negative regulator of hrp expression HrpV, at 5,274,662 to 5,275,039
_4542
Pf6N2E2_4543 - hypothetical protein, at 5,275,046 to 5,275,255
_4543
Pf6N2E2_4544 - Type III secretion outermembrane pore forming protein (YscC,MxiD,HrcC, InvG), at 5,275,252 to 5,277,369
_4544
Position (kb) 5275
5276 Strain fitness (log2 ratio) -2
-1
0
1 at 5274.362 kb on - strand, within Pf6N2E2_4541 at 5274.471 kb on + strand at 5274.471 kb on + strand at 5274.471 kb on + strand at 5274.472 kb on - strand at 5274.666 kb on + strand at 5274.666 kb on + strand at 5274.667 kb on - strand at 5274.678 kb on + strand at 5274.678 kb on + strand at 5274.679 kb on - strand at 5274.806 kb on + strand, within Pf6N2E2_4542 at 5274.806 kb on + strand, within Pf6N2E2_4542 at 5274.807 kb on - strand, within Pf6N2E2_4542 at 5274.807 kb on - strand, within Pf6N2E2_4542 at 5274.822 kb on + strand, within Pf6N2E2_4542 at 5274.893 kb on + strand, within Pf6N2E2_4542 at 5274.893 kb on + strand, within Pf6N2E2_4542 at 5274.893 kb on + strand, within Pf6N2E2_4542 at 5274.894 kb on - strand, within Pf6N2E2_4542 at 5274.894 kb on - strand, within Pf6N2E2_4542 at 5274.899 kb on + strand, within Pf6N2E2_4542 at 5274.957 kb on - strand, within Pf6N2E2_4542 at 5274.957 kb on - strand, within Pf6N2E2_4542 at 5274.957 kb on - strand, within Pf6N2E2_4542 at 5274.967 kb on - strand, within Pf6N2E2_4542 at 5274.967 kb on - strand, within Pf6N2E2_4542 at 5274.967 kb on - strand, within Pf6N2E2_4542 at 5275.017 kb on - strand at 5275.017 kb on - strand at 5275.017 kb on - strand at 5275.017 kb on - strand at 5275.017 kb on - strand at 5275.039 kb on + strand at 5275.039 kb on + strand at 5275.039 kb on + strand at 5275.040 kb on - strand at 5275.040 kb on - strand at 5275.069 kb on + strand, within Pf6N2E2_4543 at 5275.070 kb on - strand, within Pf6N2E2_4543 at 5275.226 kb on + strand, within Pf6N2E2_4543 at 5275.226 kb on + strand, within Pf6N2E2_4543 at 5275.557 kb on - strand, within Pf6N2E2_4544 at 5275.722 kb on - strand, within Pf6N2E2_4544 at 5276.129 kb on + strand, within Pf6N2E2_4544 at 5276.129 kb on + strand, within Pf6N2E2_4544 at 5276.130 kb on - strand, within Pf6N2E2_4544 at 5276.253 kb on - strand, within Pf6N2E2_4544
Per-strain Table
Position Strand Gene LocusTag Fraction Ying_OrganicAcid7 rep A; time point 3 remove 5,274,362 - Pf6N2E2_4541 0.79 -2.0 5,274,471 + +0.5 5,274,471 + +0.5 5,274,471 + -1.1 5,274,472 - -1.1 5,274,666 + -0.5 5,274,666 + +0.5 5,274,667 - -1.5 5,274,678 + -0.5 5,274,678 + +0.1 5,274,679 - -0.5 5,274,806 + Pf6N2E2_4542 0.38 +0.5 5,274,806 + Pf6N2E2_4542 0.38 -0.1 5,274,807 - Pf6N2E2_4542 0.38 +0.5 5,274,807 - Pf6N2E2_4542 0.38 -1.1 5,274,822 + Pf6N2E2_4542 0.42 -0.0 5,274,893 + Pf6N2E2_4542 0.61 -1.0 5,274,893 + Pf6N2E2_4542 0.61 -1.5 5,274,893 + Pf6N2E2_4542 0.61 +0.5 5,274,894 - Pf6N2E2_4542 0.61 +0.5 5,274,894 - Pf6N2E2_4542 0.61 -1.1 5,274,899 + Pf6N2E2_4542 0.63 -0.1 5,274,957 - Pf6N2E2_4542 0.78 -0.4 5,274,957 - Pf6N2E2_4542 0.78 -1.1 5,274,957 - Pf6N2E2_4542 0.78 +0.9 5,274,967 - Pf6N2E2_4542 0.81 -1.5 5,274,967 - Pf6N2E2_4542 0.81 -1.1 5,274,967 - Pf6N2E2_4542 0.81 +0.2 5,275,017 - -0.6 5,275,017 - -0.3 5,275,017 - -0.4 5,275,017 - +0.5 5,275,017 - -0.5 5,275,039 + -0.5 5,275,039 + -0.5 5,275,039 + +0.5 5,275,040 - -0.3 5,275,040 - -0.5 5,275,069 + Pf6N2E2_4543 0.11 +0.5 5,275,070 - Pf6N2E2_4543 0.11 -0.5 5,275,226 + Pf6N2E2_4543 0.86 -1.1 5,275,226 + Pf6N2E2_4543 0.86 -1.1 5,275,557 - Pf6N2E2_4544 0.14 -0.7 5,275,722 - Pf6N2E2_4544 0.22 +0.5 5,276,129 + Pf6N2E2_4544 0.41 +0.5 5,276,129 + Pf6N2E2_4544 0.41 -0.4 5,276,130 - Pf6N2E2_4544 0.41 +0.5 5,276,253 - Pf6N2E2_4544 0.47 -0.5
Or see this region's nucleotide sequence