Strain Fitness in Herbaspirillum seropedicae SmR1 around HSERO_RS23625

Experiment: Supernatant; Trichoderma atroviride IMI grown in Vogels_fungal_media, filtered; 1X

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 ntHSERO_RS23620 and HSERO_RS23625 are separated by 18 nucleotidesHSERO_RS23625 and HSERO_RS23630 are separated by 3 nucleotidesHSERO_RS23630 and HSERO_RS23635 are separated by 68 nucleotides HSERO_RS23620: HSERO_RS23620 - urease subunit alpha, at 5,415,734 to 5,417,434 _RS23620 HSERO_RS23625: HSERO_RS23625 - urease accessory protein UreE, at 5,417,453 to 5,417,986 _RS23625 HSERO_RS23630: HSERO_RS23630 - urease accessory protein UreF, at 5,417,990 to 5,418,670 _RS23630 HSERO_RS23635: HSERO_RS23635 - urease accessory protein UreG, at 5,418,739 to 5,419,371 _RS23635 Position (kb) 5417 5418Strain fitness (log2 ratio) -1 0 1at 5416.502 kb on + strand, within HSERO_RS23620at 5416.562 kb on + strand, within HSERO_RS23620at 5416.887 kb on - strand, within HSERO_RS23620at 5417.080 kb on - strand, within HSERO_RS23620at 5417.256 kb on + strand, within HSERO_RS23620at 5417.357 kb on - strandat 5417.520 kb on - strand, within HSERO_RS23625at 5417.592 kb on + strand, within HSERO_RS23625at 5417.600 kb on - strand, within HSERO_RS23625at 5417.609 kb on + strand, within HSERO_RS23625at 5417.650 kb on - strand, within HSERO_RS23625at 5417.980 kb on + strandat 5418.068 kb on + strand, within HSERO_RS23630at 5418.077 kb on - strand, within HSERO_RS23630at 5418.110 kb on - strand, within HSERO_RS23630at 5418.140 kb on - strand, within HSERO_RS23630at 5418.878 kb on - strand, within HSERO_RS23635

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Supernatant; Trichoderma atroviride IMI grown in Vogels_fungal_media, filtered; 1X
remove
5,416,502 + HSERO_RS23620 0.45 +0.5
5,416,562 + HSERO_RS23620 0.49 +0.3
5,416,887 - HSERO_RS23620 0.68 -0.7
5,417,080 - HSERO_RS23620 0.79 +0.5
5,417,256 + HSERO_RS23620 0.89 -1.4
5,417,357 - -0.2
5,417,520 - HSERO_RS23625 0.13 +0.3
5,417,592 + HSERO_RS23625 0.26 +0.1
5,417,600 - HSERO_RS23625 0.28 -1.5
5,417,609 + HSERO_RS23625 0.29 -0.6
5,417,650 - HSERO_RS23625 0.37 -0.3
5,417,980 + +0.3
5,418,068 + HSERO_RS23630 0.11 -0.7
5,418,077 - HSERO_RS23630 0.13 +0.0
5,418,110 - HSERO_RS23630 0.18 -0.6
5,418,140 - HSERO_RS23630 0.22 -1.5
5,418,878 - HSERO_RS23635 0.22 +0.8

Or see this region's nucleotide sequence