Strain Fitness in Herbaspirillum seropedicae SmR1 around HSERO_RS19425

Experiment: Plant assay with Setaria viridis; 10 days of inoculation with plant; outgrowth in LB

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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.

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500 ntHSERO_RS19415 and HSERO_RS19420 are separated by 186 nucleotidesHSERO_RS19420 and HSERO_RS19425 are separated by 209 nucleotidesHSERO_RS19425 and HSERO_RS19430 are separated by 44 nucleotides HSERO_RS19415: HSERO_RS19415 - membrane protein, at 4,450,306 to 4,451,538 _RS19415 HSERO_RS19420: HSERO_RS19420 - cobalt transporter, at 4,451,725 to 4,452,099 _RS19420 HSERO_RS19425: HSERO_RS19425 - ribulose-phosphate 3-epimerase, at 4,452,309 to 4,452,974 _RS19425 HSERO_RS19430: HSERO_RS19430 - phosphoglycolate phosphatase, at 4,453,019 to 4,453,699 _RS19430 Position (kb) 4452 4453Strain fitness (log2 ratio) -1 0 1 2 3at 4451.324 kb on + strand, within HSERO_RS19415at 4451.532 kb on + strandat 4452.995 kb on - strandat 4452.995 kb on - strandat 4453.308 kb on + strand, within HSERO_RS19430at 4453.316 kb on - strand, within HSERO_RS19430at 4453.326 kb on - strand, within HSERO_RS19430at 4453.363 kb on - strand, within HSERO_RS19430at 4453.393 kb on - strand, within HSERO_RS19430at 4453.408 kb on + strandat 4453.410 kb on + strand, within HSERO_RS19430at 4453.418 kb on - strand, within HSERO_RS19430at 4453.497 kb on - strand, within HSERO_RS19430at 4453.625 kb on + strand, within HSERO_RS19430at 4453.650 kb on + strandat 4453.650 kb on + strandat 4453.805 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Plant assay with Setaria viridis; 10 days of inoculation with plant; outgrowth in LB
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4,451,324 + HSERO_RS19415 0.83 -0.1
4,451,532 + -1.4
4,452,995 - +0.4
4,452,995 - +2.3
4,453,308 + HSERO_RS19430 0.42 +0.3
4,453,316 - HSERO_RS19430 0.44 -0.1
4,453,326 - HSERO_RS19430 0.45 -1.4
4,453,363 - HSERO_RS19430 0.51 +3.0
4,453,393 - HSERO_RS19430 0.55 -1.2
4,453,408 + +0.5
4,453,410 + HSERO_RS19430 0.57 +0.3
4,453,418 - HSERO_RS19430 0.59 +0.5
4,453,497 - HSERO_RS19430 0.70 -0.2
4,453,625 + HSERO_RS19430 0.89 +0.3
4,453,650 + -1.7
4,453,650 + -1.1
4,453,805 - -0.3

Or see this region's nucleotide sequence