Strain Fitness in Herbaspirillum seropedicae SmR1 around HSERO_RS08560

Experiment: Parafilmed volatile agar plate with Trichoderma atroviridae IMI dcr2mutant

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_RS08555 and HSERO_RS08560 are separated by 77 nucleotidesHSERO_RS08560 and HSERO_RS08565 are separated by 30 nucleotides HSERO_RS08555: HSERO_RS08555 - agmatinase, at 1,948,440 to 1,949,393 _RS08555 HSERO_RS08560: HSERO_RS08560 - GNAT family acetyltransferase, at 1,949,471 to 1,949,956 _RS08560 HSERO_RS08565: HSERO_RS08565 - RNA helicase, at 1,949,987 to 1,951,549 _RS08565 Position (kb) 1949 1950Strain fitness (log2 ratio) -1 0 1 2 3 4 5 6 7 8 9 10 11at 1948.622 kb on - strand, within HSERO_RS08555at 1949.149 kb on - strand, within HSERO_RS08555at 1949.302 kb on + strandat 1949.493 kb on + strandat 1949.522 kb on - strand, within HSERO_RS08560at 1949.590 kb on + strand, within HSERO_RS08560at 1949.637 kb on + strand, within HSERO_RS08560at 1949.891 kb on - strand, within HSERO_RS08560at 1950.022 kb on + strandat 1950.170 kb on + strand, within HSERO_RS08565

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Parafilmed volatile agar plate with Trichoderma atroviridae IMI dcr2mutant
remove
1,948,622 - HSERO_RS08555 0.19 +0.4
1,949,149 - HSERO_RS08555 0.74 +0.8
1,949,302 + +0.2
1,949,493 + -0.1
1,949,522 - HSERO_RS08560 0.10 +1.1
1,949,590 + HSERO_RS08560 0.24 +0.1
1,949,637 + HSERO_RS08560 0.34 -0.0
1,949,891 - HSERO_RS08560 0.86 +11.0
1,950,022 + +0.3
1,950,170 + HSERO_RS08565 0.12 -0.6

Or see this region's nucleotide sequence