Experiment: HBM-CucXylem
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) -2
-1
0
1
2 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 HBM-CucXylem remove 3,838,403 - speE LU632_RS20150 0.74 -0.7 3,838,444 + speE LU632_RS20150 0.79 +0.1 3,838,444 + speE LU632_RS20150 0.79 +0.9 3,838,445 - speE LU632_RS20150 0.79 +1.6 3,838,445 - speE LU632_RS20150 0.79 -1.8 3,838,502 + speE LU632_RS20150 0.85 +1.6 3,838,503 - speE LU632_RS20150 0.86 +0.1 3,838,507 - speE LU632_RS20150 0.86 -0.5 3,838,556 - +0.1 3,838,558 + +0.8 3,838,558 + -1.2 3,838,559 - -0.5 3,838,559 - -1.2 3,838,559 - +0.1 3,838,608 - +0.3 3,838,670 - -0.4 3,838,713 + +0.9 3,838,714 - -0.6 3,838,756 - speD LU632_RS20155 0.13 -0.7 3,838,757 + speD LU632_RS20155 0.13 -0.4 3,838,764 + speD LU632_RS20155 0.14 -1.2 3,838,764 + speD LU632_RS20155 0.14 +1.3 3,838,765 - speD LU632_RS20155 0.14 +0.6 3,838,765 - speD LU632_RS20155 0.14 +1.5 3,838,779 + speD LU632_RS20155 0.16 -0.4 3,838,780 - speD LU632_RS20155 0.16 -0.9 3,838,780 - speD LU632_RS20155 0.16 +1.5 3,838,843 + speD LU632_RS20155 0.23 +0.6 3,838,844 - speD LU632_RS20155 0.24 +0.4 3,838,982 + speD LU632_RS20155 0.41 -0.1 3,838,983 - speD LU632_RS20155 0.41 -0.4 3,838,992 - speD LU632_RS20155 0.42 +0.7 3,839,063 - speD LU632_RS20155 0.51 -0.4 3,839,063 - speD LU632_RS20155 0.51 -0.6 3,839,103 + speD LU632_RS20155 0.56 -0.6 3,839,104 - speD LU632_RS20155 0.56 +1.1 3,839,129 + speD LU632_RS20155 0.59 -0.0 3,839,130 - speD LU632_RS20155 0.59 -0.8 3,839,130 - speD LU632_RS20155 0.59 +1.1 3,839,190 + speD LU632_RS20155 0.66 +0.8 3,839,190 + speD LU632_RS20155 0.66 +0.4 3,839,190 + speD LU632_RS20155 0.66 -0.2 3,839,190 + speD LU632_RS20155 0.66 +0.2 3,839,190 + speD LU632_RS20155 0.66 +0.7 3,839,191 - speD LU632_RS20155 0.66 +0.0 3,839,191 - speD LU632_RS20155 0.66 -0.4 3,839,193 - speD LU632_RS20155 0.67 -2.4 3,839,250 + speD LU632_RS20155 0.74 -0.4 3,839,251 - speD LU632_RS20155 0.74 +0.2 3,839,331 + speD LU632_RS20155 0.84 -0.1 3,839,332 - speD LU632_RS20155 0.84 -0.8 3,839,359 + speD LU632_RS20155 0.87 -1.3 3,839,359 + speD LU632_RS20155 0.87 -0.6 3,839,360 - speD LU632_RS20155 0.87 +1.2 3,839,360 - speD LU632_RS20155 0.87 +1.6 3,839,392 + -0.5 3,839,392 + -0.2 3,839,479 - LU632_RS20160 0.11 -0.0 3,839,588 + LU632_RS20160 0.24 +0.1 3,839,589 - LU632_RS20160 0.25 +1.1 3,839,589 - LU632_RS20160 0.25 -1.5 3,839,589 - LU632_RS20160 0.25 +0.2 3,839,703 + LU632_RS20160 0.38 +1.6 3,839,815 + LU632_RS20160 0.52 +1.5 3,839,998 - LU632_RS20160 0.73 +0.1 3,840,096 + LU632_RS20160 0.85 +0.5 3,840,100 + LU632_RS20160 0.86 -0.1 3,840,133 - LU632_RS20160 0.90 +0.3 3,840,169 - +1.7 3,840,323 - LU632_RS20165 0.47 +2.7 3,840,358 - LU632_RS20165 0.60 +0.9 3,840,400 - LU632_RS20165 0.75 +1.1 3,840,400 - LU632_RS20165 0.75 +0.0 3,840,600 + +0.3 3,840,603 - LU632_RS20175 0.24 +0.7 3,840,864 - +0.3 3,841,160 + LU632_RS20180 0.34 +0.1
Or see this region's nucleotide sequence