Strain Fitness in Hydrogenophaga sp. GW460-11-11-14-LB1 around GFF4687

Experiment: Ying_AminoAcid20 rep B; time point 2

Add experiment(s):

Zoom: Pan:

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.

download SVG
500 ntGFF4685 and GFF4686 overlap by 4 nucleotidesGFF4686 and GFF4687 overlap by 4 nucleotidesGFF4687 and GFF4688 are separated by 2 nucleotidesGFF4688 and GFF4689 are separated by 4 nucleotides GFF4685 - Carbon monoxide dehydrogenase medium chain (EC 1.2.99.2), at 1,636,623 to 1,637,486 GFF4685 GFF4686 - Xanthine dehydrogenase iron-sulfur subunit (EC 1.17.1.4), at 1,637,483 to 1,637,998 GFF4686 GFF4687 - Salicylate hydroxylase (EC 1.14.13.1), at 1,637,995 to 1,639,215 GFF4687 GFF4688 - N-carbamoylsarcosine amidase (EC 3.5.1.59), at 1,639,218 to 1,639,928 GFF4688 GFF4689 - Acetyl-coenzyme A synthetase (EC 6.2.1.1), at 1,639,933 to 1,641,633 GFF4689 Position (kb) 1637 1638 1639 1640Strain fitness (log2 ratio) -1 0 1at 1637.895 kb on - strand, within GFF4686at 1637.928 kb on - strand, within GFF4686at 1638.008 kb on + strandat 1638.008 kb on + strandat 1638.008 kb on + strandat 1638.008 kb on + strandat 1638.008 kb on + strandat 1638.009 kb on - strandat 1638.098 kb on - strandat 1638.277 kb on + strand, within GFF4687at 1638.659 kb on - strand, within GFF4687at 1638.659 kb on - strand, within GFF4687at 1638.659 kb on - strand, within GFF4687at 1638.922 kb on + strand, within GFF4687at 1638.961 kb on + strand, within GFF4687at 1638.961 kb on + strand, within GFF4687at 1638.962 kb on - strand, within GFF4687at 1638.962 kb on - strand, within GFF4687at 1638.962 kb on - strand, within GFF4687at 1639.129 kb on + strandat 1639.129 kb on + strandat 1639.189 kb on + strandat 1639.357 kb on - strand, within GFF4688at 1639.500 kb on + strand, within GFF4688at 1639.501 kb on - strand, within GFF4688at 1639.506 kb on + strand, within GFF4688at 1639.506 kb on + strand, within GFF4688at 1639.507 kb on - strand, within GFF4688at 1639.574 kb on - strand, within GFF4688at 1639.587 kb on + strand, within GFF4688at 1639.587 kb on + strand, within GFF4688at 1639.587 kb on + strand, within GFF4688at 1639.588 kb on - strand, within GFF4688at 1639.680 kb on + strand, within GFF4688at 1639.681 kb on - strand, within GFF4688at 1639.681 kb on - strand, within GFF4688at 1639.806 kb on + strand, within GFF4688at 1639.806 kb on + strand, within GFF4688at 1639.807 kb on - strand, within GFF4688at 1640.093 kb on + strandat 1640.177 kb on + strand, within GFF4689

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Ying_AminoAcid20 rep B; time point 2
remove
1,637,895 - GFF4686 0.80 -1.5
1,637,928 - GFF4686 0.86 -0.4
1,638,008 + +0.2
1,638,008 + -0.5
1,638,008 + +0.2
1,638,008 + +0.0
1,638,008 + -0.1
1,638,009 - -0.7
1,638,098 - +0.4
1,638,277 + GFF4687 0.23 -0.7
1,638,659 - GFF4687 0.54 +0.7
1,638,659 - GFF4687 0.54 +1.0
1,638,659 - GFF4687 0.54 +0.1
1,638,922 + GFF4687 0.76 -0.1
1,638,961 + GFF4687 0.79 +0.5
1,638,961 + GFF4687 0.79 +0.6
1,638,962 - GFF4687 0.79 +0.3
1,638,962 - GFF4687 0.79 +0.0
1,638,962 - GFF4687 0.79 -0.0
1,639,129 + +0.1
1,639,129 + +0.9
1,639,189 + -0.1
1,639,357 - GFF4688 0.20 -0.2
1,639,500 + GFF4688 0.40 +0.5
1,639,501 - GFF4688 0.40 +0.1
1,639,506 + GFF4688 0.41 -0.5
1,639,506 + GFF4688 0.41 -0.7
1,639,507 - GFF4688 0.41 +0.2
1,639,574 - GFF4688 0.50 -0.2
1,639,587 + GFF4688 0.52 +0.9
1,639,587 + GFF4688 0.52 +0.1
1,639,587 + GFF4688 0.52 -1.6
1,639,588 - GFF4688 0.52 +0.3
1,639,680 + GFF4688 0.65 -0.3
1,639,681 - GFF4688 0.65 +0.3
1,639,681 - GFF4688 0.65 +0.0
1,639,806 + GFF4688 0.83 -0.6
1,639,806 + GFF4688 0.83 -0.2
1,639,807 - GFF4688 0.83 +0.9
1,640,093 + -0.3
1,640,177 + GFF4689 0.14 -0.1

Or see this region's nucleotide sequence