Strain Fitness in Pseudomonas putida KT2440 around PP_4861

Experiment: Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=144_hrs

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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 ntPP_4860 and PP_4861 are separated by 102 nucleotidesPP_4861 and PP_4862 are separated by 49 nucleotides PP_4860: PP_4860 - putative Mannose-6-phosphate isomerase, at 5,526,488 to 5,527,621 _4860 PP_4861: PP_4861 - conserved protein of unknown function, at 5,527,724 to 5,527,972 _4861 PP_4862: PP_4862 - 3-hydroxy acid dehydrogenase, NADP-dependent / malonic semialdehyde reductase, at 5,528,022 to 5,528,786 _4862 Position (kb) 5527 5528Strain fitness (log2 ratio) -2 -1 0 1 2 3at 5526.818 kb on + strand, within PP_4860at 5526.819 kb on - strand, within PP_4860at 5526.819 kb on - strand, within PP_4860at 5526.866 kb on + strand, within PP_4860at 5526.866 kb on + strand, within PP_4860at 5526.866 kb on + strand, within PP_4860at 5526.866 kb on + strand, within PP_4860at 5526.866 kb on + strand, within PP_4860at 5526.867 kb on - strand, within PP_4860at 5526.867 kb on - strand, within PP_4860at 5526.869 kb on - strand, within PP_4860at 5526.903 kb on - strand, within PP_4860at 5526.903 kb on - strand, within PP_4860at 5526.995 kb on + strand, within PP_4860at 5526.995 kb on + strand, within PP_4860at 5526.996 kb on - strand, within PP_4860at 5527.086 kb on + strand, within PP_4860at 5527.087 kb on - strand, within PP_4860at 5527.087 kb on - strand, within PP_4860at 5527.210 kb on + strand, within PP_4860at 5527.247 kb on + strand, within PP_4860at 5527.247 kb on + strand, within PP_4860at 5527.248 kb on - strand, within PP_4860at 5527.248 kb on - strand, within PP_4860at 5527.258 kb on + strand, within PP_4860at 5527.258 kb on + strand, within PP_4860at 5527.258 kb on + strand, within PP_4860at 5527.258 kb on + strand, within PP_4860at 5527.258 kb on + strand, within PP_4860at 5527.259 kb on - strand, within PP_4860at 5527.299 kb on + strand, within PP_4860at 5527.299 kb on + strand, within PP_4860at 5527.299 kb on + strand, within PP_4860at 5527.300 kb on - strand, within PP_4860at 5527.300 kb on - strand, within PP_4860at 5527.300 kb on - strand, within PP_4860at 5527.300 kb on - strand, within PP_4860at 5527.300 kb on - strand, within PP_4860at 5527.399 kb on + strand, within PP_4860at 5527.399 kb on + strand, within PP_4860at 5527.400 kb on - strand, within PP_4860at 5527.400 kb on - strand, within PP_4860at 5527.419 kb on - strand, within PP_4860at 5527.432 kb on + strand, within PP_4860at 5527.432 kb on + strand, within PP_4860at 5527.433 kb on - strand, within PP_4860at 5527.433 kb on - strand, within PP_4860at 5527.433 kb on - strand, within PP_4860at 5527.514 kb on + strandat 5527.515 kb on - strandat 5527.515 kb on - strandat 5527.515 kb on - strandat 5527.586 kb on - strandat 5527.619 kb on + strandat 5527.619 kb on + strandat 5527.620 kb on - strandat 5527.620 kb on - strandat 5527.620 kb on - strandat 5527.626 kb on + strandat 5527.627 kb on - strandat 5527.627 kb on - strandat 5527.627 kb on - strandat 5527.683 kb on + strandat 5527.683 kb on + strandat 5527.684 kb on - strandat 5527.716 kb on + strandat 5527.717 kb on - strandat 5527.717 kb on - strandat 5527.785 kb on + strand, within PP_4861at 5527.785 kb on + strand, within PP_4861at 5527.786 kb on - strand, within PP_4861at 5527.786 kb on - strand, within PP_4861at 5527.806 kb on - strand, within PP_4861at 5527.836 kb on - strand, within PP_4861at 5527.842 kb on + strand, within PP_4861at 5527.842 kb on + strand, within PP_4861at 5527.842 kb on + strand, within PP_4861at 5527.843 kb on - strand, within PP_4861at 5527.843 kb on - strand, within PP_4861at 5527.926 kb on + strand, within PP_4861at 5527.957 kb on + strandat 5527.957 kb on + strandat 5527.957 kb on + strandat 5527.957 kb on + strandat 5527.957 kb on + strandat 5527.958 kb on - strandat 5527.958 kb on - strandat 5527.961 kb on + strandat 5527.962 kb on - strandat 5527.962 kb on - strandat 5527.963 kb on + strandat 5527.963 kb on + strandat 5527.963 kb on + strandat 5528.017 kb on + strandat 5528.017 kb on + strandat 5528.018 kb on - strandat 5528.023 kb on + strandat 5528.023 kb on + strandat 5528.023 kb on + strandat 5528.024 kb on - strandat 5528.024 kb on - strandat 5528.091 kb on + strandat 5528.142 kb on - strand, within PP_4862at 5528.177 kb on + strand, within PP_4862at 5528.177 kb on + strand, within PP_4862at 5528.185 kb on + strandat 5528.185 kb on + strand, within PP_4862at 5528.185 kb on + strand, within PP_4862at 5528.185 kb on + strand, within PP_4862at 5528.186 kb on - strand, within PP_4862at 5528.333 kb on - strand, within PP_4862at 5528.333 kb on - strand, within PP_4862at 5528.356 kb on + strand, within PP_4862at 5528.356 kb on + strand, within PP_4862at 5528.356 kb on + strand, within PP_4862at 5528.356 kb on + strand, within PP_4862at 5528.356 kb on + strand, within PP_4862at 5528.357 kb on - strand, within PP_4862at 5528.357 kb on - strand, within PP_4862at 5528.357 kb on - strand, within PP_4862at 5528.357 kb on - strand, within PP_4862at 5528.440 kb on + strand, within PP_4862at 5528.440 kb on + strand, within PP_4862at 5528.440 kb on + strand, within PP_4862at 5528.441 kb on - strand, within PP_4862at 5528.441 kb on - strand, within PP_4862at 5528.441 kb on - strand, within PP_4862at 5528.441 kb on - strand, within PP_4862at 5528.441 kb on - strand, within PP_4862at 5528.441 kb on - strand, within PP_4862at 5528.441 kb on - strand, within PP_4862at 5528.582 kb on + strand, within PP_4862at 5528.582 kb on + strand, within PP_4862at 5528.582 kb on + strand, within PP_4862at 5528.582 kb on + strand, within PP_4862at 5528.583 kb on - strand, within PP_4862at 5528.697 kb on + strand, within PP_4862at 5528.698 kb on - strand, within PP_4862at 5528.698 kb on - strand, within PP_4862at 5528.773 kb on - strandat 5528.803 kb on + strandat 5528.804 kb on - strandat 5528.804 kb on - strandat 5528.804 kb on - strandat 5528.923 kb on + strandat 5528.924 kb on - strandat 5528.924 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=144_hrs
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5,526,818 + PP_4860 0.29 +0.2
5,526,819 - PP_4860 0.29 -0.2
5,526,819 - PP_4860 0.29 +1.1
5,526,866 + PP_4860 0.33 +0.0
5,526,866 + PP_4860 0.33 +0.5
5,526,866 + PP_4860 0.33 +0.0
5,526,866 + PP_4860 0.33 +0.5
5,526,866 + PP_4860 0.33 +1.6
5,526,867 - PP_4860 0.33 -0.9
5,526,867 - PP_4860 0.33 -0.5
5,526,869 - PP_4860 0.34 -0.0
5,526,903 - PP_4860 0.37 -0.1
5,526,903 - PP_4860 0.37 +1.2
5,526,995 + PP_4860 0.45 -0.2
5,526,995 + PP_4860 0.45 -0.3
5,526,996 - PP_4860 0.45 -0.0
5,527,086 + PP_4860 0.53 +0.2
5,527,087 - PP_4860 0.53 -0.5
5,527,087 - PP_4860 0.53 -0.8
5,527,210 + PP_4860 0.64 -0.4
5,527,247 + PP_4860 0.67 +0.2
5,527,247 + PP_4860 0.67 -0.1
5,527,248 - PP_4860 0.67 +0.3
5,527,248 - PP_4860 0.67 +0.3
5,527,258 + PP_4860 0.68 -0.1
5,527,258 + PP_4860 0.68 -1.9
5,527,258 + PP_4860 0.68 +0.4
5,527,258 + PP_4860 0.68 -1.0
5,527,258 + PP_4860 0.68 -0.2
5,527,259 - PP_4860 0.68 +0.1
5,527,299 + PP_4860 0.72 -1.0
5,527,299 + PP_4860 0.72 -0.2
5,527,299 + PP_4860 0.72 +0.7
5,527,300 - PP_4860 0.72 +0.2
5,527,300 - PP_4860 0.72 -0.3
5,527,300 - PP_4860 0.72 -0.2
5,527,300 - PP_4860 0.72 -0.7
5,527,300 - PP_4860 0.72 +0.0
5,527,399 + PP_4860 0.80 -2.1
5,527,399 + PP_4860 0.80 -2.0
5,527,400 - PP_4860 0.80 -0.6
5,527,400 - PP_4860 0.80 -0.9
5,527,419 - PP_4860 0.82 -0.4
5,527,432 + PP_4860 0.83 +0.0
5,527,432 + PP_4860 0.83 -0.1
5,527,433 - PP_4860 0.83 +0.6
5,527,433 - PP_4860 0.83 -1.4
5,527,433 - PP_4860 0.83 -1.9
5,527,514 + +0.1
5,527,515 - +0.1
5,527,515 - -0.4
5,527,515 - +0.1
5,527,586 - +0.6
5,527,619 + -0.7
5,527,619 + -0.4
5,527,620 - -1.4
5,527,620 - -0.4
5,527,620 - -0.6
5,527,626 + -1.0
5,527,627 - -0.2
5,527,627 - -0.8
5,527,627 - +0.2
5,527,683 + -0.4
5,527,683 + +0.5
5,527,684 - -0.1
5,527,716 + -0.2
5,527,717 - -0.3
5,527,717 - +0.4
5,527,785 + PP_4861 0.24 +0.1
5,527,785 + PP_4861 0.24 +0.6
5,527,786 - PP_4861 0.25 +0.1
5,527,786 - PP_4861 0.25 +0.7
5,527,806 - PP_4861 0.33 +0.7
5,527,836 - PP_4861 0.45 +0.4
5,527,842 + PP_4861 0.47 +0.9
5,527,842 + PP_4861 0.47 +0.2
5,527,842 + PP_4861 0.47 +0.9
5,527,843 - PP_4861 0.48 +0.5
5,527,843 - PP_4861 0.48 +0.4
5,527,926 + PP_4861 0.81 -0.6
5,527,957 + +0.8
5,527,957 + +0.6
5,527,957 + +0.8
5,527,957 + +0.5
5,527,957 + -0.7
5,527,958 - -0.7
5,527,958 - +0.9
5,527,961 + -1.3
5,527,962 - +1.3
5,527,962 - +0.0
5,527,963 + +0.5
5,527,963 + -0.6
5,527,963 + -1.2
5,528,017 + +0.3
5,528,017 + -0.7
5,528,018 - -0.4
5,528,023 + +0.2
5,528,023 + -0.1
5,528,023 + +0.7
5,528,024 - +0.3
5,528,024 - +0.7
5,528,091 + +0.6
5,528,142 - PP_4862 0.16 +0.0
5,528,177 + PP_4862 0.20 -0.6
5,528,177 + PP_4862 0.20 +0.2
5,528,185 + +3.4
5,528,185 + PP_4862 0.21 +0.5
5,528,185 + PP_4862 0.21 -1.5
5,528,185 + PP_4862 0.21 +0.7
5,528,186 - PP_4862 0.21 -1.1
5,528,333 - PP_4862 0.41 +0.3
5,528,333 - PP_4862 0.41 +0.3
5,528,356 + PP_4862 0.44 -0.1
5,528,356 + PP_4862 0.44 -0.9
5,528,356 + PP_4862 0.44 +0.9
5,528,356 + PP_4862 0.44 +0.4
5,528,356 + PP_4862 0.44 +0.6
5,528,357 - PP_4862 0.44 -1.3
5,528,357 - PP_4862 0.44 -0.2
5,528,357 - PP_4862 0.44 +0.2
5,528,357 - PP_4862 0.44 +0.1
5,528,440 + PP_4862 0.55 +0.9
5,528,440 + PP_4862 0.55 -0.4
5,528,440 + PP_4862 0.55 -0.1
5,528,441 - PP_4862 0.55 +0.7
5,528,441 - PP_4862 0.55 +0.7
5,528,441 - PP_4862 0.55 +0.8
5,528,441 - PP_4862 0.55 +1.4
5,528,441 - PP_4862 0.55 +0.4
5,528,441 - PP_4862 0.55 -1.6
5,528,441 - PP_4862 0.55 +0.7
5,528,582 + PP_4862 0.73 +0.5
5,528,582 + PP_4862 0.73 +0.8
5,528,582 + PP_4862 0.73 -0.8
5,528,582 + PP_4862 0.73 -0.2
5,528,583 - PP_4862 0.73 +0.1
5,528,697 + PP_4862 0.88 +0.3
5,528,698 - PP_4862 0.88 -0.8
5,528,698 - PP_4862 0.88 -1.3
5,528,773 - +0.2
5,528,803 + +1.1
5,528,804 - -0.4
5,528,804 - -0.0
5,528,804 - +0.4
5,528,923 + +0.3
5,528,924 - +0.9
5,528,924 - -0.1

Or see this region's nucleotide sequence