Strain Fitness in Herbaspirillum seropedicae SmR1 around HSERO_RS02240

Experiment: Parafilmed volatile agar plate with Trichoderma atroviridae IMI dcr2mutant

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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_RS02235 and HSERO_RS02240 are separated by 8 nucleotidesHSERO_RS02240 and HSERO_RS02245 are separated by 185 nucleotidesHSERO_RS02245 and HSERO_RS02250 are separated by 130 nucleotides HSERO_RS02235: HSERO_RS02235 - membrane protein, at 488,946 to 489,752 _RS02235 HSERO_RS02240: HSERO_RS02240 - homoserine kinase, at 489,761 to 490,717 _RS02240 HSERO_RS02245: HSERO_RS02245 - hypothetical protein, at 490,903 to 491,343 _RS02245 HSERO_RS02250: HSERO_RS02250 - hypothetical protein, at 491,474 to 492,166 _RS02250 Position (kb) 489 490 491Strain fitness (log2 ratio) -2 -1 0 1 2at 488.944 kb on + strandat 488.980 kb on - strandat 489.000 kb on - strandat 489.019 kb on - strandat 489.037 kb on + strand, within HSERO_RS02235at 489.168 kb on - strand, within HSERO_RS02235at 489.168 kb on - strand, within HSERO_RS02235at 489.325 kb on + strand, within HSERO_RS02235at 489.464 kb on - strand, within HSERO_RS02235at 489.696 kb on - strandat 489.762 kb on - strandat 490.003 kb on - strand, within HSERO_RS02240at 490.909 kb on - strandat 491.043 kb on - strand, within HSERO_RS02245at 491.075 kb on - strand, within HSERO_RS02245at 491.095 kb on - strand, within HSERO_RS02245at 491.326 kb on + strandat 491.392 kb on + strandat 491.446 kb on - strandat 491.495 kb on + strandat 491.503 kb on - strandat 491.713 kb on + strand, within HSERO_RS02250

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Per-strain Table

Position Strand Gene LocusTag Fraction Parafilmed volatile agar plate with Trichoderma atroviridae IMI dcr2mutant
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488,944 + -0.1
488,980 - -0.5
489,000 - -0.2
489,019 - -0.6
489,037 + HSERO_RS02235 0.11 -2.6
489,168 - HSERO_RS02235 0.28 -1.5
489,168 - HSERO_RS02235 0.28 -1.1
489,325 + HSERO_RS02235 0.47 -0.8
489,464 - HSERO_RS02235 0.64 -1.1
489,696 - -1.1
489,762 - -0.4
490,003 - HSERO_RS02240 0.25 +1.8
490,909 - -0.2
491,043 - HSERO_RS02245 0.32 -1.2
491,075 - HSERO_RS02245 0.39 +1.0
491,095 - HSERO_RS02245 0.44 -1.2
491,326 + -0.6
491,392 + -0.3
491,446 - +0.5
491,495 + -1.0
491,503 - -0.1
491,713 + HSERO_RS02250 0.34 +0.8

Or see this region's nucleotide sequence