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 speE and speD are separated by 26 nucleotides speD and LU632_RS20160 overlap by 80 nucleotides LU632_RS20160 and LU632_RS20165 overlap by 23 nucleotides LU632_RS20165 and LU632_RS20170 overlap by 38 nucleotides LU632_RS20170 and LU632_RS20175 overlap by 71 nucleotides LU632_RS20175 and LU632_RS20180 are separated by 203 nucleotides
LU632_RS20150: speE - polyamine aminopropyltransferase, at 3,837,769 to 3,838,626
speE
LU632_RS20155: speD - adenosylmethionine decarboxylase, at 3,838,653 to 3,839,462
speD
LU632_RS20160: LU632_RS20160 - DeoR/GlpR family DNA-binding transcription regulator, at 3,839,383 to 3,840,219
_RS20160
LU632_RS20165: LU632_RS20165 - 4-hydroxythreonine-4-phosphate dehydrogenase PdxA, at 3,840,197 to 3,840,466
_RS20165
LU632_RS20170: LU632_RS20170 - four-carbon acid sugar kinase family protein, at 3,840,429 to 3,840,602
_RS20170
LU632_RS20175: LU632_RS20175 - hypothetical protein, at 3,840,532 to 3,840,822
_RS20175
LU632_RS20180: LU632_RS20180 - iron-containing alcohol dehydrogenase, at 3,841,026 to 3,841,418
_RS20180
Position (kb) 3839
3840
3841 Strain fitness (log2 ratio) -1
0
1
2
3
4 at 3838.403 kb on - strand, within speE at 3838.444 kb on + strand, within speE at 3838.444 kb on + strand, within speE at 3838.445 kb on - strand, within speE at 3838.445 kb on - strand, within speE at 3838.502 kb on + strand, within speE at 3838.503 kb on - strand, within speE at 3838.507 kb on - strand, within speE at 3838.556 kb on - strand at 3838.558 kb on + strand at 3838.558 kb on + strand at 3838.559 kb on - strand at 3838.559 kb on - strand at 3838.559 kb on - strand at 3838.608 kb on - strand at 3838.670 kb on - strand at 3838.713 kb on + strand at 3838.714 kb on - strand at 3838.756 kb on - strand, within speD at 3838.757 kb on + strand, within speD at 3838.764 kb on + strand, within speD at 3838.764 kb on + strand, within speD at 3838.765 kb on - strand, within speD at 3838.765 kb on - strand, within speD at 3838.779 kb on + strand, within speD at 3838.780 kb on - strand, within speD at 3838.780 kb on - strand, within speD at 3838.843 kb on + strand, within speD at 3838.844 kb on - strand, within speD at 3838.982 kb on + strand, within speD at 3838.983 kb on - strand, within speD at 3838.992 kb on - strand, within speD at 3839.063 kb on - strand, within speD at 3839.063 kb on - strand, within speD at 3839.103 kb on + strand, within speD at 3839.104 kb on - strand, within speD at 3839.129 kb on + strand, within speD at 3839.130 kb on - strand, within speD at 3839.130 kb on - strand, within speD at 3839.190 kb on + strand, within speD at 3839.190 kb on + strand, within speD at 3839.190 kb on + strand, within speD at 3839.190 kb on + strand, within speD at 3839.190 kb on + strand, within speD at 3839.191 kb on - strand, within speD at 3839.191 kb on - strand, within speD at 3839.193 kb on - strand, within speD at 3839.250 kb on + strand, within speD at 3839.251 kb on - strand, within speD at 3839.331 kb on + strand, within speD at 3839.332 kb on - strand, within speD at 3839.359 kb on + strand, within speD at 3839.359 kb on + strand, within speD at 3839.360 kb on - strand, within speD at 3839.360 kb on - strand, within speD at 3839.392 kb on + strand at 3839.392 kb on + strand at 3839.479 kb on - strand, within LU632_RS20160 at 3839.588 kb on + strand, within LU632_RS20160 at 3839.589 kb on - strand, within LU632_RS20160 at 3839.589 kb on - strand, within LU632_RS20160 at 3839.589 kb on - strand, within LU632_RS20160 at 3839.703 kb on + strand, within LU632_RS20160 at 3839.815 kb on + strand, within LU632_RS20160 at 3839.998 kb on - strand, within LU632_RS20160 at 3840.096 kb on + strand, within LU632_RS20160 at 3840.100 kb on + strand, within LU632_RS20160 at 3840.133 kb on - strand, within LU632_RS20160 at 3840.169 kb on - strand at 3840.323 kb on - strand, within LU632_RS20165 at 3840.358 kb on - strand, within LU632_RS20165 at 3840.400 kb on - strand, within LU632_RS20165 at 3840.400 kb on - strand, within LU632_RS20165 at 3840.600 kb on + strand at 3840.603 kb on - strand, within LU632_RS20175 at 3840.864 kb on - strand at 3841.160 kb on + strand, within LU632_RS20180
Per-strain Table
Position Strand Gene LocusTag Fraction plant=Squash; plant sample=QP3; plant location=NA remove 3,838,403 - speE LU632_RS20150 0.74 -0.8 3,838,444 + speE LU632_RS20150 0.79 +2.4 3,838,444 + speE LU632_RS20150 0.79 +0.8 3,838,445 - speE LU632_RS20150 0.79 -0.3 3,838,445 - speE LU632_RS20150 0.79 -0.9 3,838,502 + speE LU632_RS20150 0.85 -0.5 3,838,503 - speE LU632_RS20150 0.86 -0.0 3,838,507 - speE LU632_RS20150 0.86 -0.4 3,838,556 - -0.0 3,838,558 + -0.1 3,838,558 + -1.3 3,838,559 - +0.5 3,838,559 - -0.3 3,838,559 - -1.5 3,838,608 - -1.5 3,838,670 - -0.5 3,838,713 + +1.2 3,838,714 - +2.4 3,838,756 - speD LU632_RS20155 0.13 -0.8 3,838,757 + speD LU632_RS20155 0.13 +0.6 3,838,764 + speD LU632_RS20155 0.14 -1.3 3,838,764 + speD LU632_RS20155 0.14 +0.5 3,838,765 - speD LU632_RS20155 0.14 -0.5 3,838,765 - speD LU632_RS20155 0.14 +0.4 3,838,779 + speD LU632_RS20155 0.16 -0.5 3,838,780 - speD LU632_RS20155 0.16 -1.4 3,838,780 - speD LU632_RS20155 0.16 +0.5 3,838,843 + speD LU632_RS20155 0.23 +0.5 3,838,844 - speD LU632_RS20155 0.24 +0.8 3,838,982 + speD LU632_RS20155 0.41 +0.8 3,838,983 - speD LU632_RS20155 0.41 +2.4 3,838,992 - speD LU632_RS20155 0.42 +0.1 3,839,063 - speD LU632_RS20155 0.51 +0.8 3,839,063 - speD LU632_RS20155 0.51 +1.7 3,839,103 + speD LU632_RS20155 0.56 +0.1 3,839,104 - speD LU632_RS20155 0.56 +3.0 3,839,129 + speD LU632_RS20155 0.59 -0.5 3,839,130 - speD LU632_RS20155 0.59 -0.7 3,839,130 - speD LU632_RS20155 0.59 -0.0 3,839,190 + speD LU632_RS20155 0.66 +0.4 3,839,190 + speD LU632_RS20155 0.66 +0.3 3,839,190 + speD LU632_RS20155 0.66 +0.4 3,839,190 + speD LU632_RS20155 0.66 +0.7 3,839,190 + speD LU632_RS20155 0.66 -1.1 3,839,191 - speD LU632_RS20155 0.66 -0.1 3,839,191 - speD LU632_RS20155 0.66 +0.9 3,839,193 - speD LU632_RS20155 0.67 +0.5 3,839,250 + speD LU632_RS20155 0.74 +0.1 3,839,251 - speD LU632_RS20155 0.74 -0.3 3,839,331 + speD LU632_RS20155 0.84 -0.3 3,839,332 - speD LU632_RS20155 0.84 +1.0 3,839,359 + speD LU632_RS20155 0.87 -0.2 3,839,359 + speD LU632_RS20155 0.87 -0.7 3,839,360 - speD LU632_RS20155 0.87 +1.5 3,839,360 - speD LU632_RS20155 0.87 +4.0 3,839,392 + -0.6 3,839,392 + -0.7 3,839,479 - LU632_RS20160 0.11 +1.0 3,839,588 + LU632_RS20160 0.24 +0.2 3,839,589 - LU632_RS20160 0.25 +0.5 3,839,589 - LU632_RS20160 0.25 -0.6 3,839,589 - LU632_RS20160 0.25 +0.2 3,839,703 + LU632_RS20160 0.38 -0.8 3,839,815 + LU632_RS20160 0.52 -0.5 3,839,998 - LU632_RS20160 0.73 +0.8 3,840,096 + LU632_RS20160 0.85 +1.6 3,840,100 + LU632_RS20160 0.86 -0.5 3,840,133 - LU632_RS20160 0.90 +0.8 3,840,169 - +2.1 3,840,323 - LU632_RS20165 0.47 +2.9 3,840,358 - LU632_RS20165 0.60 +1.4 3,840,400 - LU632_RS20165 0.75 -0.2 3,840,400 - LU632_RS20165 0.75 +0.3 3,840,600 + -0.8 3,840,603 - LU632_RS20175 0.24 -0.1 3,840,864 - -0.9 3,841,160 + LU632_RS20180 0.34 +1.3
Or see this region's nucleotide sequence