Strain Fitness in Burkholderia phytofirmans PsJN around BPHYT_RS06545

Experiment: Plant=Zea_mays; PlantTreatment=None; Sample=soil; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days

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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_RS06535 and BPHYT_RS06540 overlap by 4 nucleotidesBPHYT_RS06540 and BPHYT_RS06545 are separated by 361 nucleotidesBPHYT_RS06545 and BPHYT_RS06550 are separated by 111 nucleotidesBPHYT_RS06550 and BPHYT_RS06555 are separated by 119 nucleotides BPHYT_RS06535: BPHYT_RS06535 - membrane protein, at 1,484,057 to 1,484,485 _RS06535 BPHYT_RS06540: BPHYT_RS06540 - RNA polymerase sigma70 factor, at 1,484,482 to 1,485,045 _RS06540 BPHYT_RS06545: BPHYT_RS06545 - acetolactate synthase, at 1,485,407 to 1,487,170 _RS06545 BPHYT_RS06550: BPHYT_RS06550 - acetolactate synthase, at 1,487,282 to 1,487,773 _RS06550 BPHYT_RS06555: BPHYT_RS06555 - ketol-acid reductoisomerase, at 1,487,893 to 1,488,909 _RS06555 Position (kb) 1485 1486 1487 1488Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1 2at 1484.485 kb on + strandat 1484.485 kb on + strandat 1484.486 kb on - strandat 1484.601 kb on + strand, within BPHYT_RS06540at 1484.602 kb on - strand, within BPHYT_RS06540at 1484.602 kb on - strand, within BPHYT_RS06540at 1484.811 kb on + strand, within BPHYT_RS06540at 1484.811 kb on + strand, within BPHYT_RS06540at 1484.811 kb on + strand, within BPHYT_RS06540at 1484.811 kb on + strand, within BPHYT_RS06540at 1484.838 kb on - strand, within BPHYT_RS06540at 1484.862 kb on + strand, within BPHYT_RS06540at 1484.862 kb on + strand, within BPHYT_RS06540at 1484.863 kb on - strand, within BPHYT_RS06540at 1484.863 kb on - strand, within BPHYT_RS06540at 1484.975 kb on + strand, within BPHYT_RS06540at 1485.077 kb on + strandat 1485.113 kb on + strandat 1485.162 kb on + strandat 1485.163 kb on - strandat 1485.163 kb on - strandat 1485.224 kb on - strandat 1485.224 kb on - strandat 1485.253 kb on + strandat 1485.274 kb on + strandat 1485.274 kb on + strandat 1485.275 kb on - strandat 1485.275 kb on - strandat 1485.412 kb on + strandat 1485.551 kb on + strandat 1485.569 kb on + strandat 1485.725 kb on + strand, within BPHYT_RS06545at 1485.725 kb on + strand, within BPHYT_RS06545at 1485.725 kb on + strand, within BPHYT_RS06545at 1485.971 kb on + strand, within BPHYT_RS06545at 1486.004 kb on + strand, within BPHYT_RS06545at 1486.004 kb on + strand, within BPHYT_RS06545at 1486.079 kb on + strand, within BPHYT_RS06545at 1486.080 kb on - strand, within BPHYT_RS06545at 1486.085 kb on + strand, within BPHYT_RS06545at 1486.085 kb on + strand, within BPHYT_RS06545at 1486.085 kb on + strand, within BPHYT_RS06545at 1486.085 kb on + strand, within BPHYT_RS06545at 1486.085 kb on + strand, within BPHYT_RS06545at 1486.162 kb on + strand, within BPHYT_RS06545at 1486.165 kb on + strand, within BPHYT_RS06545at 1486.165 kb on + strand, within BPHYT_RS06545at 1486.241 kb on + strand, within BPHYT_RS06545at 1486.816 kb on + strand, within BPHYT_RS06545at 1486.844 kb on + strand, within BPHYT_RS06545at 1486.931 kb on + strand, within BPHYT_RS06545at 1486.943 kb on + strand, within BPHYT_RS06545at 1486.943 kb on + strand, within BPHYT_RS06545at 1486.943 kb on + strand, within BPHYT_RS06545at 1486.943 kb on + strand, within BPHYT_RS06545at 1487.166 kb on + strandat 1487.363 kb on + strand, within BPHYT_RS06550at 1487.599 kb on + strand, within BPHYT_RS06550at 1487.701 kb on + strand, within BPHYT_RS06550at 1487.818 kb on + strandat 1487.840 kb on + strandat 1487.840 kb on + strandat 1487.840 kb on + strandat 1487.840 kb on + strandat 1487.840 kb on + strandat 1487.841 kb on - strandat 1487.841 kb on - strandat 1487.841 kb on - strandat 1487.841 kb on - strandat 1487.841 kb on - strandat 1487.842 kb on + strandat 1487.842 kb on + strandat 1487.842 kb on + strandat 1487.842 kb on + strandat 1487.842 kb on + strandat 1487.843 kb on - strandat 1487.843 kb on - strandat 1488.157 kb on + strand, within BPHYT_RS06555at 1488.158 kb on - strand, within BPHYT_RS06555

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Per-strain Table

Position Strand Gene LocusTag Fraction Plant=Zea_mays; PlantTreatment=None; Sample=soil; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days
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1,484,485 + -2.0
1,484,485 + -0.1
1,484,486 - -0.2
1,484,601 + BPHYT_RS06540 0.21 -2.5
1,484,602 - BPHYT_RS06540 0.21 -1.9
1,484,602 - BPHYT_RS06540 0.21 -3.1
1,484,811 + BPHYT_RS06540 0.58 -2.6
1,484,811 + BPHYT_RS06540 0.58 -1.6
1,484,811 + BPHYT_RS06540 0.58 -0.7
1,484,811 + BPHYT_RS06540 0.58 -2.7
1,484,838 - BPHYT_RS06540 0.63 -1.1
1,484,862 + BPHYT_RS06540 0.67 +0.3
1,484,862 + BPHYT_RS06540 0.67 -1.1
1,484,863 - BPHYT_RS06540 0.68 -1.1
1,484,863 - BPHYT_RS06540 0.68 -1.7
1,484,975 + BPHYT_RS06540 0.87 +0.3
1,485,077 + +1.2
1,485,113 + -1.0
1,485,162 + -1.8
1,485,163 - -0.5
1,485,163 - +0.5
1,485,224 - +0.2
1,485,224 - -0.2
1,485,253 + -0.0
1,485,274 + +0.2
1,485,274 + -0.8
1,485,275 - -3.9
1,485,275 - -3.0
1,485,412 + -4.0
1,485,551 + -0.4
1,485,569 + -0.8
1,485,725 + BPHYT_RS06545 0.18 +0.2
1,485,725 + BPHYT_RS06545 0.18 -1.1
1,485,725 + BPHYT_RS06545 0.18 -2.0
1,485,971 + BPHYT_RS06545 0.32 -2.9
1,486,004 + BPHYT_RS06545 0.34 -3.7
1,486,004 + BPHYT_RS06545 0.34 -5.3
1,486,079 + BPHYT_RS06545 0.38 -4.9
1,486,080 - BPHYT_RS06545 0.38 -1.1
1,486,085 + BPHYT_RS06545 0.38 -2.8
1,486,085 + BPHYT_RS06545 0.38 -3.1
1,486,085 + BPHYT_RS06545 0.38 -1.8
1,486,085 + BPHYT_RS06545 0.38 -1.1
1,486,085 + BPHYT_RS06545 0.38 -4.1
1,486,162 + BPHYT_RS06545 0.43 -2.8
1,486,165 + BPHYT_RS06545 0.43 -3.9
1,486,165 + BPHYT_RS06545 0.43 -1.0
1,486,241 + BPHYT_RS06545 0.47 -2.3
1,486,816 + BPHYT_RS06545 0.80 -2.8
1,486,844 + BPHYT_RS06545 0.81 -2.0
1,486,931 + BPHYT_RS06545 0.86 -3.3
1,486,943 + BPHYT_RS06545 0.87 -4.7
1,486,943 + BPHYT_RS06545 0.87 -0.4
1,486,943 + BPHYT_RS06545 0.87 -3.7
1,486,943 + BPHYT_RS06545 0.87 -3.9
1,487,166 + -0.1
1,487,363 + BPHYT_RS06550 0.16 -2.0
1,487,599 + BPHYT_RS06550 0.64 -2.1
1,487,701 + BPHYT_RS06550 0.85 -1.0
1,487,818 + -0.6
1,487,840 + +0.6
1,487,840 + +0.1
1,487,840 + +0.4
1,487,840 + +2.5
1,487,840 + +1.2
1,487,841 - -4.0
1,487,841 - -3.4
1,487,841 - -3.4
1,487,841 - -3.6
1,487,841 - -2.8
1,487,842 + -0.5
1,487,842 + -0.7
1,487,842 + -0.6
1,487,842 + -0.1
1,487,842 + +0.7
1,487,843 - -3.3
1,487,843 - -3.1
1,488,157 + BPHYT_RS06555 0.26 -4.4
1,488,158 - BPHYT_RS06555 0.26 -0.8

Or see this region's nucleotide sequence