Strain Fitness in Burkholderia phytofirmans PsJN around BPHYT_RS04765

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

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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 ntBPHYT_RS04760 and BPHYT_RS04765 are separated by 95 nucleotidesBPHYT_RS04765 and BPHYT_RS04770 are separated by 41 nucleotidesBPHYT_RS04770 and BPHYT_RS04775 are separated by 16 nucleotides BPHYT_RS04760: BPHYT_RS04760 - 3-keto-5-aminohexanoate cleavage protein, at 1,099,405 to 1,100,337 _RS04760 BPHYT_RS04765: BPHYT_RS04765 - 2-deoxy-D-ribonate transporter (from data), at 1,100,433 to 1,101,776 _RS04765 BPHYT_RS04770: BPHYT_RS04770 - short-chain dehydrogenase, at 1,101,818 to 1,102,558 _RS04770 BPHYT_RS04775: BPHYT_RS04775 - 2-deoxy-D-ribonate 3-dehydrogenase (from data), at 1,102,575 to 1,103,366 _RS04775 Position (kb) 1100 1101 1102Strain fitness (log2 ratio) -1 0 1at 1099.813 kb on + strand, within BPHYT_RS04760at 1099.814 kb on - strand, within BPHYT_RS04760at 1099.849 kb on - strand, within BPHYT_RS04760at 1099.849 kb on - strand, within BPHYT_RS04760at 1099.937 kb on - strand, within BPHYT_RS04760at 1099.937 kb on - strand, within BPHYT_RS04760at 1100.188 kb on + strand, within BPHYT_RS04760at 1100.189 kb on - strand, within BPHYT_RS04760at 1100.420 kb on - strandat 1100.420 kb on - strandat 1100.420 kb on - strandat 1100.490 kb on - strandat 1100.502 kb on - strandat 1100.529 kb on + strandat 1100.529 kb on + strandat 1100.778 kb on + strand, within BPHYT_RS04765at 1100.778 kb on + strand, within BPHYT_RS04765at 1100.835 kb on + strand, within BPHYT_RS04765at 1100.835 kb on + strand, within BPHYT_RS04765at 1100.835 kb on + strand, within BPHYT_RS04765at 1100.835 kb on + strand, within BPHYT_RS04765at 1100.836 kb on - strand, within BPHYT_RS04765at 1100.836 kb on - strand, within BPHYT_RS04765at 1100.837 kb on + strand, within BPHYT_RS04765at 1100.838 kb on - strand, within BPHYT_RS04765at 1101.202 kb on - strand, within BPHYT_RS04765at 1101.606 kb on + strand, within BPHYT_RS04765at 1101.606 kb on + strand, within BPHYT_RS04765at 1101.774 kb on + strandat 1102.263 kb on - strand, within BPHYT_RS04770at 1102.263 kb on - strand, within BPHYT_RS04770at 1102.277 kb on + strand, within BPHYT_RS04770at 1102.309 kb on + strand, within BPHYT_RS04770at 1102.477 kb on + strand, within BPHYT_RS04770at 1102.477 kb on + strand, within BPHYT_RS04770at 1102.478 kb on - strand, within BPHYT_RS04770at 1102.481 kb on + strand, within BPHYT_RS04770at 1102.482 kb on - strand, within BPHYT_RS04770at 1102.482 kb on - strand, within BPHYT_RS04770at 1102.513 kb on + strandat 1102.514 kb on - strandat 1102.619 kb on - strandat 1102.619 kb on - strandat 1102.692 kb on + strand, within BPHYT_RS04775at 1102.693 kb on - strand, within BPHYT_RS04775at 1102.694 kb on + strand, within BPHYT_RS04775

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Per-strain Table

Position Strand Gene LocusTag Fraction Supernatant; Trichoderma atroviride IMI grown in Vogels_fungal_media, filtered; 1X
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1,099,813 + BPHYT_RS04760 0.44 -0.8
1,099,814 - BPHYT_RS04760 0.44 -0.3
1,099,849 - BPHYT_RS04760 0.48 -0.7
1,099,849 - BPHYT_RS04760 0.48 +0.8
1,099,937 - BPHYT_RS04760 0.57 -0.4
1,099,937 - BPHYT_RS04760 0.57 -0.2
1,100,188 + BPHYT_RS04760 0.84 -0.6
1,100,189 - BPHYT_RS04760 0.84 +0.2
1,100,420 - +0.2
1,100,420 - +1.6
1,100,420 - +0.5
1,100,490 - +0.8
1,100,502 - -0.2
1,100,529 + +1.5
1,100,529 + -0.2
1,100,778 + BPHYT_RS04765 0.26 -0.7
1,100,778 + BPHYT_RS04765 0.26 +0.0
1,100,835 + BPHYT_RS04765 0.30 -0.4
1,100,835 + BPHYT_RS04765 0.30 +0.5
1,100,835 + BPHYT_RS04765 0.30 -0.2
1,100,835 + BPHYT_RS04765 0.30 -0.6
1,100,836 - BPHYT_RS04765 0.30 +0.6
1,100,836 - BPHYT_RS04765 0.30 +0.9
1,100,837 + BPHYT_RS04765 0.30 -1.3
1,100,838 - BPHYT_RS04765 0.30 +1.1
1,101,202 - BPHYT_RS04765 0.57 +0.3
1,101,606 + BPHYT_RS04765 0.87 -0.4
1,101,606 + BPHYT_RS04765 0.87 -0.2
1,101,774 + -0.2
1,102,263 - BPHYT_RS04770 0.60 -0.2
1,102,263 - BPHYT_RS04770 0.60 -0.6
1,102,277 + BPHYT_RS04770 0.62 -0.5
1,102,309 + BPHYT_RS04770 0.66 +1.2
1,102,477 + BPHYT_RS04770 0.89 +1.0
1,102,477 + BPHYT_RS04770 0.89 +1.4
1,102,478 - BPHYT_RS04770 0.89 -1.1
1,102,481 + BPHYT_RS04770 0.89 -0.2
1,102,482 - BPHYT_RS04770 0.90 +0.5
1,102,482 - BPHYT_RS04770 0.90 +0.1
1,102,513 + +0.3
1,102,514 - -0.3
1,102,619 - -0.3
1,102,619 - -0.8
1,102,692 + BPHYT_RS04775 0.15 -0.3
1,102,693 - BPHYT_RS04775 0.15 +1.7
1,102,694 + BPHYT_RS04775 0.15 -1.2

Or see this region's nucleotide sequence