Strain Fitness in Pseudomonas sp. RS175 around PFR28_01748

Experiment: Plant=Sorghum; PlantTreatment=None; Sample=root_top; GrowthSubstrate=calcine_clay; Collection=Direct

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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 ntPFR28_01746 and PFR28_01747 are separated by 8 nucleotidesPFR28_01747 and PFR28_01748 overlap by 4 nucleotidesPFR28_01748 and PFR28_01749 overlap by 8 nucleotidesPFR28_01749 and PFR28_01750 overlap by 4 nucleotides PFR28_01746: PFR28_01746 - Type II secretion system protein G, at 1,949,512 to 1,949,961 _01746 PFR28_01747: PFR28_01747 - Type II secretion system protein K, at 1,949,970 to 1,950,956 _01747 PFR28_01748: PFR28_01748 - hypothetical protein, at 1,950,953 to 1,952,134 _01748 PFR28_01749: PFR28_01749 - hypothetical protein, at 1,952,127 to 1,952,687 _01749 PFR28_01750: PFR28_01750 - Secretin XcpQ, at 1,952,684 to 1,955,044 _01750 Position (kb) 1950 1951 1952 1953Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 1949.959 kb on + strandat 1949.959 kb on + strandat 1950.115 kb on + strand, within PFR28_01747at 1950.115 kb on + strand, within PFR28_01747at 1950.115 kb on + strand, within PFR28_01747at 1950.116 kb on - strand, within PFR28_01747at 1950.116 kb on - strand, within PFR28_01747at 1950.116 kb on - strand, within PFR28_01747at 1950.116 kb on - strand, within PFR28_01747at 1950.116 kb on - strand, within PFR28_01747at 1950.119 kb on + strand, within PFR28_01747at 1950.120 kb on - strand, within PFR28_01747at 1950.349 kb on + strand, within PFR28_01747at 1950.349 kb on + strand, within PFR28_01747at 1950.349 kb on + strand, within PFR28_01747at 1950.350 kb on - strand, within PFR28_01747at 1950.690 kb on + strand, within PFR28_01747at 1950.690 kb on + strand, within PFR28_01747at 1950.690 kb on + strand, within PFR28_01747at 1950.690 kb on + strand, within PFR28_01747at 1950.690 kb on + strand, within PFR28_01747at 1950.690 kb on + strand, within PFR28_01747at 1950.691 kb on - strand, within PFR28_01747at 1950.691 kb on - strand, within PFR28_01747at 1950.691 kb on - strand, within PFR28_01747at 1950.952 kb on + strandat 1950.952 kb on + strandat 1950.952 kb on + strandat 1950.952 kb on + strandat 1950.953 kb on - strandat 1950.953 kb on - strandat 1950.953 kb on - strandat 1950.953 kb on - strandat 1950.953 kb on - strandat 1951.368 kb on - strand, within PFR28_01748at 1951.452 kb on + strand, within PFR28_01748at 1951.452 kb on + strand, within PFR28_01748at 1951.953 kb on + strand, within PFR28_01748at 1951.953 kb on + strand, within PFR28_01748at 1951.954 kb on - strand, within PFR28_01748at 1951.954 kb on - strand, within PFR28_01748at 1952.425 kb on + strand, within PFR28_01749at 1952.426 kb on - strand, within PFR28_01749at 1952.452 kb on - strand, within PFR28_01749at 1953.122 kb on + strand, within PFR28_01750at 1953.122 kb on + strand, within PFR28_01750at 1953.123 kb on - strand, within PFR28_01750

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Per-strain Table

Position Strand Gene LocusTag Fraction Plant=Sorghum; PlantTreatment=None; Sample=root_top; GrowthSubstrate=calcine_clay; Collection=Direct
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1,949,959 + -0.1
1,949,959 + -0.3
1,950,115 + PFR28_01747 0.15 -1.7
1,950,115 + PFR28_01747 0.15 +2.0
1,950,115 + PFR28_01747 0.15 -2.8
1,950,116 - PFR28_01747 0.15 -0.7
1,950,116 - PFR28_01747 0.15 -0.5
1,950,116 - PFR28_01747 0.15 -0.8
1,950,116 - PFR28_01747 0.15 +2.3
1,950,116 - PFR28_01747 0.15 +0.4
1,950,119 + PFR28_01747 0.15 -0.9
1,950,120 - PFR28_01747 0.15 -1.9
1,950,349 + PFR28_01747 0.38 -0.4
1,950,349 + PFR28_01747 0.38 +0.4
1,950,349 + PFR28_01747 0.38 -0.7
1,950,350 - PFR28_01747 0.39 -1.3
1,950,690 + PFR28_01747 0.73 +1.3
1,950,690 + PFR28_01747 0.73 +0.8
1,950,690 + PFR28_01747 0.73 -2.8
1,950,690 + PFR28_01747 0.73 +1.9
1,950,690 + PFR28_01747 0.73 +0.4
1,950,690 + PFR28_01747 0.73 -0.3
1,950,691 - PFR28_01747 0.73 +0.7
1,950,691 - PFR28_01747 0.73 +0.6
1,950,691 - PFR28_01747 0.73 +0.7
1,950,952 + -1.6
1,950,952 + -2.3
1,950,952 + -1.8
1,950,952 + -0.3
1,950,953 - +1.7
1,950,953 - -0.7
1,950,953 - +1.0
1,950,953 - -0.7
1,950,953 - -0.8
1,951,368 - PFR28_01748 0.35 -0.5
1,951,452 + PFR28_01748 0.42 -0.3
1,951,452 + PFR28_01748 0.42 -0.9
1,951,953 + PFR28_01748 0.85 -1.6
1,951,953 + PFR28_01748 0.85 -1.1
1,951,954 - PFR28_01748 0.85 -1.1
1,951,954 - PFR28_01748 0.85 -0.7
1,952,425 + PFR28_01749 0.53 -0.2
1,952,426 - PFR28_01749 0.53 -0.0
1,952,452 - PFR28_01749 0.58 +1.2
1,953,122 + PFR28_01750 0.19 +0.1
1,953,122 + PFR28_01750 0.19 +3.7
1,953,123 - PFR28_01750 0.19 +3.0

Or see this region's nucleotide sequence