Strain Fitness in Herbaspirillum seropedicae SmR1 around HSERO_RS16675

Experiment: L-Malic (C) with ammonium chloride; anaerobic; 8 days

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_RS16670 and HSERO_RS16675 are separated by 3 nucleotidesHSERO_RS16675 and HSERO_RS16680 overlap by 13 nucleotidesHSERO_RS16680 and HSERO_RS16685 are separated by 8 nucleotides HSERO_RS16670: HSERO_RS16670 - acetylornithine aminotransferase, at 3,816,032 to 3,817,234 _RS16670 HSERO_RS16675: HSERO_RS16675 - hypothetical protein, at 3,817,238 to 3,817,807 _RS16675 HSERO_RS16680: HSERO_RS16680 - GntR family transcriptional regulator, at 3,817,795 to 3,818,565 _RS16680 HSERO_RS16685: HSERO_RS16685 - lactate dehydrogenase, at 3,818,574 to 3,819,647 _RS16685 Position (kb) 3817 3818Strain fitness (log2 ratio) -1 0 1at 3817.216 kb on + strandat 3817.344 kb on - strand, within HSERO_RS16675at 3817.550 kb on - strand, within HSERO_RS16675at 3817.656 kb on - strand, within HSERO_RS16675at 3818.273 kb on + strand, within HSERO_RS16680at 3818.318 kb on - strand, within HSERO_RS16680at 3818.577 kb on + strandat 3818.649 kb on - strandat 3818.661 kb on - strand

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction L-Malic (C) with ammonium chloride; anaerobic; 8 days
remove
3,817,216 + +0.3
3,817,344 - HSERO_RS16675 0.19 -0.4
3,817,550 - HSERO_RS16675 0.55 -0.4
3,817,656 - HSERO_RS16675 0.73 +0.0
3,818,273 + HSERO_RS16680 0.62 +0.2
3,818,318 - HSERO_RS16680 0.68 +0.7
3,818,577 + +0.1
3,818,649 - -0.5
3,818,661 - +1.7

Or see this region's nucleotide sequence