Strain Fitness in Shewanella loihica PV-4 around Shew_2360

Experiment: LB

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 ntShew_2358 and Shew_2359 are separated by 69 nucleotidesShew_2359 and Shew_2360 are separated by 161 nucleotidesShew_2360 and Shew_2361 overlap by 4 nucleotides Shew_2358: Shew_2358 - peptidase M24 (RefSeq), at 2,758,272 to 2,759,591 _2358 Shew_2359: Shew_2359 - uracil-DNA glycosylase superfamily protein (RefSeq), at 2,759,661 to 2,760,251 _2359 Shew_2360: Shew_2360 - D-hydroxyproline dehydrogenase (from data), at 2,760,413 to 2,761,753 _2360 Shew_2361: Shew_2361 - proline racemase (RefSeq), at 2,761,750 to 2,762,790 _2361 Position (kb) 2760 2761 2762Strain fitness (log2 ratio) -1 0 1 2at 2759.728 kb on + strand, within Shew_2359at 2760.280 kb on + strandat 2760.582 kb on + strand, within Shew_2360at 2760.606 kb on - strand, within Shew_2360at 2760.651 kb on + strand, within Shew_2360at 2760.685 kb on + strand, within Shew_2360at 2760.995 kb on - strand, within Shew_2360at 2761.155 kb on + strand, within Shew_2360at 2761.181 kb on + strand, within Shew_2360at 2761.461 kb on - strand, within Shew_2360at 2761.701 kb on + strandat 2761.701 kb on + strandat 2762.211 kb on - strand, within Shew_2361at 2762.366 kb on + strand, within Shew_2361at 2762.407 kb on + strand, within Shew_2361at 2762.433 kb on + strand, within Shew_2361

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction LB
remove
2,759,728 + Shew_2359 0.11 +0.5
2,760,280 + -0.5
2,760,582 + Shew_2360 0.13 -0.6
2,760,606 - Shew_2360 0.14 -0.4
2,760,651 + Shew_2360 0.18 -0.4
2,760,685 + Shew_2360 0.20 -0.4
2,760,995 - Shew_2360 0.43 -0.2
2,761,155 + Shew_2360 0.55 +2.6
2,761,181 + Shew_2360 0.57 -0.4
2,761,461 - Shew_2360 0.78 -0.2
2,761,701 + +0.3
2,761,701 + -0.0
2,762,211 - Shew_2361 0.44 -0.2
2,762,366 + Shew_2361 0.59 +0.1
2,762,407 + Shew_2361 0.63 -0.3
2,762,433 + Shew_2361 0.66 -0.2

Or see this region's nucleotide sequence