Strain Fitness in Ralstonia solanacearum PSI07 around RPSI07_RS08025

Experiment: Plant=Tomato_cv_Moneymaker; PlantTreatment=None; Sample=xylem local total stem; GrowthSubstrate=calcine_clay; Collection=direct

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 ntRPSI07_RS08015 and RPSI07_RS08020 are separated by 13 nucleotidesRPSI07_RS08020 and RPSI07_RS08025 overlap by 4 nucleotidesRPSI07_RS08025 and RPSI07_RS08030 overlap by 4 nucleotides RPSI07_RS08015: RPSI07_RS08015 - amino acid ABC transporter substrate-binding protein, at 38,119 to 38,886 _RS08015 RPSI07_RS08020: RPSI07_RS08020 - ectoine/hydroxyectoine ABC transporter permease subunit EhuD, at 38,900 to 39,571 _RS08020 RPSI07_RS08025: RPSI07_RS08025 - amino acid ABC transporter ATP-binding protein, at 39,568 to 40,329 _RS08025 RPSI07_RS08030: RPSI07_RS08030 - FAD-binding oxidoreductase, at 40,326 to 41,633 _RS08030 Position (kb) 39 40 41Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3 4 5 6 7at 38.617 kb on + strand, within RPSI07_RS08015at 38.617 kb on + strand, within RPSI07_RS08015at 38.617 kb on + strand, within RPSI07_RS08015at 38.618 kb on - strand, within RPSI07_RS08015at 38.618 kb on - strand, within RPSI07_RS08015at 38.699 kb on - strand, within RPSI07_RS08015at 38.746 kb on + strand, within RPSI07_RS08015at 38.747 kb on - strand, within RPSI07_RS08015at 38.747 kb on - strand, within RPSI07_RS08015at 39.122 kb on + strand, within RPSI07_RS08020at 39.122 kb on + strand, within RPSI07_RS08020at 39.122 kb on + strand, within RPSI07_RS08020at 39.122 kb on + strand, within RPSI07_RS08020at 39.122 kb on + strand, within RPSI07_RS08020at 39.122 kb on + strand, within RPSI07_RS08020at 39.122 kb on + strand, within RPSI07_RS08020at 39.122 kb on + strand, within RPSI07_RS08020at 39.123 kb on - strand, within RPSI07_RS08020at 39.123 kb on - strand, within RPSI07_RS08020at 39.123 kb on - strand, within RPSI07_RS08020at 39.123 kb on - strand, within RPSI07_RS08020at 39.123 kb on - strand, within RPSI07_RS08020at 39.123 kb on - strand, within RPSI07_RS08020at 39.123 kb on - strand, within RPSI07_RS08020at 39.123 kb on - strand, within RPSI07_RS08020at 39.123 kb on - strand, within RPSI07_RS08020at 39.123 kb on - strand, within RPSI07_RS08020at 39.123 kb on - strand, within RPSI07_RS08020at 39.123 kb on - strand, within RPSI07_RS08020at 39.128 kb on + strand, within RPSI07_RS08020at 39.128 kb on + strand, within RPSI07_RS08020at 39.128 kb on + strand, within RPSI07_RS08020at 39.128 kb on + strand, within RPSI07_RS08020at 39.128 kb on + strand, within RPSI07_RS08020at 39.128 kb on + strand, within RPSI07_RS08020at 39.128 kb on + strand, within RPSI07_RS08020at 39.129 kb on - strand, within RPSI07_RS08020at 39.129 kb on - strand, within RPSI07_RS08020at 39.129 kb on - strand, within RPSI07_RS08020at 39.129 kb on - strand, within RPSI07_RS08020at 39.200 kb on + strand, within RPSI07_RS08020at 39.358 kb on + strand, within RPSI07_RS08020at 39.358 kb on + strand, within RPSI07_RS08020at 39.470 kb on + strand, within RPSI07_RS08020at 39.470 kb on + strand, within RPSI07_RS08020at 39.470 kb on + strand, within RPSI07_RS08020at 39.471 kb on - strand, within RPSI07_RS08020at 39.471 kb on - strand, within RPSI07_RS08020at 39.471 kb on - strand, within RPSI07_RS08020at 39.471 kb on - strand, within RPSI07_RS08020at 39.471 kb on - strand, within RPSI07_RS08020at 39.472 kb on + strand, within RPSI07_RS08020at 39.472 kb on + strand, within RPSI07_RS08020at 39.472 kb on + strand, within RPSI07_RS08020at 39.473 kb on - strand, within RPSI07_RS08020at 39.473 kb on - strand, within RPSI07_RS08020at 39.473 kb on - strand, within RPSI07_RS08020at 39.491 kb on + strand, within RPSI07_RS08020at 39.491 kb on + strand, within RPSI07_RS08020at 39.491 kb on + strand, within RPSI07_RS08020at 39.724 kb on + strand, within RPSI07_RS08025at 39.724 kb on + strand, within RPSI07_RS08025at 39.724 kb on + strand, within RPSI07_RS08025at 39.725 kb on - strand, within RPSI07_RS08025at 39.877 kb on + strand, within RPSI07_RS08025at 39.877 kb on + strand, within RPSI07_RS08025at 39.877 kb on + strand, within RPSI07_RS08025at 39.878 kb on - strand, within RPSI07_RS08025at 40.325 kb on + strandat 40.325 kb on + strandat 40.326 kb on - strandat 40.467 kb on + strand, within RPSI07_RS08030at 40.745 kb on + strand, within RPSI07_RS08030at 40.746 kb on + strand, within RPSI07_RS08030at 40.746 kb on + strand, within RPSI07_RS08030at 40.747 kb on - strand, within RPSI07_RS08030at 40.747 kb on - strand, within RPSI07_RS08030at 40.747 kb on - strand, within RPSI07_RS08030at 40.914 kb on + strand, within RPSI07_RS08030at 40.915 kb on - strand, within RPSI07_RS08030at 40.915 kb on - strand, within RPSI07_RS08030at 40.915 kb on - strand, within RPSI07_RS08030at 41.073 kb on + strand, within RPSI07_RS08030at 41.073 kb on + strand, within RPSI07_RS08030at 41.073 kb on + strand, within RPSI07_RS08030at 41.074 kb on - strand, within RPSI07_RS08030at 41.129 kb on + strand, within RPSI07_RS08030at 41.221 kb on - strand, within RPSI07_RS08030

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Plant=Tomato_cv_Moneymaker; PlantTreatment=None; Sample=xylem local total stem; GrowthSubstrate=calcine_clay; Collection=direct
remove
38,617 + RPSI07_RS08015 0.65 +0.3
38,617 + RPSI07_RS08015 0.65 +0.4
38,617 + RPSI07_RS08015 0.65 -0.5
38,618 - RPSI07_RS08015 0.65 -0.3
38,618 - RPSI07_RS08015 0.65 +2.9
38,699 - RPSI07_RS08015 0.76 +0.0
38,746 + RPSI07_RS08015 0.82 -0.8
38,747 - RPSI07_RS08015 0.82 +0.9
38,747 - RPSI07_RS08015 0.82 +1.8
39,122 + RPSI07_RS08020 0.33 -0.2
39,122 + RPSI07_RS08020 0.33 -0.5
39,122 + RPSI07_RS08020 0.33 +0.8
39,122 + RPSI07_RS08020 0.33 -0.3
39,122 + RPSI07_RS08020 0.33 +1.5
39,122 + RPSI07_RS08020 0.33 +0.5
39,122 + RPSI07_RS08020 0.33 -1.2
39,122 + RPSI07_RS08020 0.33 -1.2
39,123 - RPSI07_RS08020 0.33 -2.9
39,123 - RPSI07_RS08020 0.33 -0.6
39,123 - RPSI07_RS08020 0.33 +2.9
39,123 - RPSI07_RS08020 0.33 +2.9
39,123 - RPSI07_RS08020 0.33 -2.2
39,123 - RPSI07_RS08020 0.33 -3.6
39,123 - RPSI07_RS08020 0.33 +2.9
39,123 - RPSI07_RS08020 0.33 +1.3
39,123 - RPSI07_RS08020 0.33 +2.2
39,123 - RPSI07_RS08020 0.33 -3.1
39,123 - RPSI07_RS08020 0.33 +0.6
39,123 - RPSI07_RS08020 0.33 -1.1
39,128 + RPSI07_RS08020 0.34 +3.1
39,128 + RPSI07_RS08020 0.34 -3.1
39,128 + RPSI07_RS08020 0.34 +2.4
39,128 + RPSI07_RS08020 0.34 -0.5
39,128 + RPSI07_RS08020 0.34 +2.5
39,128 + RPSI07_RS08020 0.34 +0.4
39,128 + RPSI07_RS08020 0.34 +0.9
39,129 - RPSI07_RS08020 0.34 -1.6
39,129 - RPSI07_RS08020 0.34 +0.1
39,129 - RPSI07_RS08020 0.34 -1.1
39,129 - RPSI07_RS08020 0.34 +0.1
39,200 + RPSI07_RS08020 0.45 -1.9
39,358 + RPSI07_RS08020 0.68 +0.6
39,358 + RPSI07_RS08020 0.68 +1.1
39,470 + RPSI07_RS08020 0.85 +0.9
39,470 + RPSI07_RS08020 0.85 -0.2
39,470 + RPSI07_RS08020 0.85 +0.1
39,471 - RPSI07_RS08020 0.85 -0.1
39,471 - RPSI07_RS08020 0.85 +1.1
39,471 - RPSI07_RS08020 0.85 -2.4
39,471 - RPSI07_RS08020 0.85 -3.0
39,471 - RPSI07_RS08020 0.85 -2.4
39,472 + RPSI07_RS08020 0.85 -2.4
39,472 + RPSI07_RS08020 0.85 -1.1
39,472 + RPSI07_RS08020 0.85 +1.0
39,473 - RPSI07_RS08020 0.85 -0.5
39,473 - RPSI07_RS08020 0.85 -0.5
39,473 - RPSI07_RS08020 0.85 -0.5
39,491 + RPSI07_RS08020 0.88 -1.4
39,491 + RPSI07_RS08020 0.88 +0.6
39,491 + RPSI07_RS08020 0.88 +0.4
39,724 + RPSI07_RS08025 0.20 -0.1
39,724 + RPSI07_RS08025 0.20 -1.5
39,724 + RPSI07_RS08025 0.20 +1.2
39,725 - RPSI07_RS08025 0.21 -0.8
39,877 + RPSI07_RS08025 0.41 +1.0
39,877 + RPSI07_RS08025 0.41 +1.0
39,877 + RPSI07_RS08025 0.41 -1.3
39,878 - RPSI07_RS08025 0.41 +1.4
40,325 + -0.3
40,325 + +0.2
40,326 - +0.0
40,467 + RPSI07_RS08030 0.11 +0.5
40,745 + RPSI07_RS08030 0.32 -0.8
40,746 + RPSI07_RS08030 0.32 +1.3
40,746 + RPSI07_RS08030 0.32 +2.2
40,747 - RPSI07_RS08030 0.32 +3.2
40,747 - RPSI07_RS08030 0.32 +0.4
40,747 - RPSI07_RS08030 0.32 +0.6
40,914 + RPSI07_RS08030 0.45 -1.0
40,915 - RPSI07_RS08030 0.45 -1.8
40,915 - RPSI07_RS08030 0.45 +0.7
40,915 - RPSI07_RS08030 0.45 -0.5
41,073 + RPSI07_RS08030 0.57 +1.4
41,073 + RPSI07_RS08030 0.57 +7.6
41,073 + RPSI07_RS08030 0.57 +1.7
41,074 - RPSI07_RS08030 0.57 -1.6
41,129 + RPSI07_RS08030 0.61 -1.7
41,221 - RPSI07_RS08030 0.68 -1.1

Or see this region's nucleotide sequence