Strain Fitness in Pseudomonas putida KT2440 around PP_3874

Experiment: Growth at pH9 and (C) D-Glucose

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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_3871 and PP_3873 are separated by 29 nucleotidesPP_3873 and PP_3874 overlap by 8 nucleotidesPP_3874 and PP_3875 are separated by 2 nucleotidesPP_3875 and PP_3876 are separated by 2 nucleotidesPP_3876 and PP_3877 overlap by 26 nucleotides PP_3871: PP_3871 - conserved protein of unknown function, at 4,395,180 to 4,395,773 _3871 PP_3873: PP_3873 - conserved protein of unknown function, at 4,395,803 to 4,396,318 _3873 PP_3874: PP_3874 - conserved protein of unknown function, at 4,396,311 to 4,396,685 _3874 PP_3875: PP_3875 - conserved protein of unknown function, at 4,396,688 to 4,397,239 _3875 PP_3876: PP_3876 - conserved protein of unknown function, at 4,397,242 to 4,397,568 _3876 PP_3877: PP_3877 - conserved protein of unknown function, at 4,397,543 to 4,398,856 _3877 Position (kb) 4396 4397Strain fitness (log2 ratio) -4 -3 -2 -1 0 1at 4395.319 kb on + strand, within PP_3871at 4395.320 kb on - strand, within PP_3871at 4395.394 kb on + strand, within PP_3871at 4395.420 kb on + strand, within PP_3871at 4395.420 kb on + strand, within PP_3871at 4395.420 kb on + strand, within PP_3871at 4395.421 kb on - strand, within PP_3871at 4395.439 kb on + strand, within PP_3871at 4395.440 kb on - strand, within PP_3871at 4395.454 kb on + strand, within PP_3871at 4395.649 kb on + strand, within PP_3871at 4395.650 kb on - strand, within PP_3871at 4395.958 kb on + strand, within PP_3873at 4395.959 kb on - strand, within PP_3873at 4395.959 kb on - strand, within PP_3873at 4395.959 kb on - strand, within PP_3873at 4395.959 kb on - strand, within PP_3873at 4396.029 kb on + strand, within PP_3873at 4396.029 kb on + strand, within PP_3873at 4396.029 kb on + strand, within PP_3873at 4396.030 kb on - strand, within PP_3873at 4396.041 kb on + strand, within PP_3873at 4396.041 kb on + strand, within PP_3873at 4396.041 kb on + strand, within PP_3873at 4396.041 kb on + strand, within PP_3873at 4396.041 kb on + strand, within PP_3873at 4396.041 kb on + strand, within PP_3873at 4396.041 kb on + strand, within PP_3873at 4396.042 kb on - strand, within PP_3873at 4396.042 kb on - strand, within PP_3873at 4396.042 kb on - strand, within PP_3873at 4396.042 kb on - strand, within PP_3873at 4396.042 kb on - strand, within PP_3873at 4396.042 kb on - strand, within PP_3873at 4396.042 kb on - strand, within PP_3873at 4396.042 kb on - strand, within PP_3873at 4396.042 kb on - strand, within PP_3873at 4396.044 kb on + strand, within PP_3873at 4396.045 kb on - strand, within PP_3873at 4396.045 kb on - strand, within PP_3873at 4396.045 kb on - strand, within PP_3873at 4396.129 kb on + strand, within PP_3873at 4396.130 kb on - strand, within PP_3873at 4396.149 kb on + strand, within PP_3873at 4396.150 kb on - strand, within PP_3873at 4396.312 kb on + strandat 4396.313 kb on - strandat 4396.318 kb on + strandat 4396.318 kb on + strandat 4396.520 kb on - strand, within PP_3874at 4396.520 kb on - strand, within PP_3874at 4396.628 kb on + strand, within PP_3874at 4396.629 kb on - strand, within PP_3874at 4396.667 kb on + strandat 4396.667 kb on + strandat 4396.667 kb on + strandat 4396.668 kb on - strandat 4396.668 kb on - strandat 4396.671 kb on + strandat 4396.671 kb on + strandat 4396.671 kb on + strandat 4396.672 kb on - strandat 4396.672 kb on - strandat 4396.679 kb on + strandat 4396.863 kb on + strand, within PP_3875at 4396.874 kb on + strand, within PP_3875at 4396.875 kb on - strand, within PP_3875at 4396.911 kb on + strand, within PP_3875at 4396.921 kb on + strand, within PP_3875at 4396.921 kb on + strand, within PP_3875at 4396.922 kb on - strand, within PP_3875at 4397.221 kb on - strandat 4397.221 kb on - strandat 4397.384 kb on + strand, within PP_3876at 4397.472 kb on + strand, within PP_3876at 4397.473 kb on - strand, within PP_3876at 4397.545 kb on - strandat 4397.554 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Growth at pH9 and (C) D-Glucose
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4,395,319 + PP_3871 0.23 -0.8
4,395,320 - PP_3871 0.24 -0.6
4,395,394 + PP_3871 0.36 -2.2
4,395,420 + PP_3871 0.40 -1.2
4,395,420 + PP_3871 0.40 -0.4
4,395,420 + PP_3871 0.40 -0.0
4,395,421 - PP_3871 0.41 -0.1
4,395,439 + PP_3871 0.44 -0.0
4,395,440 - PP_3871 0.44 -0.7
4,395,454 + PP_3871 0.46 -0.0
4,395,649 + PP_3871 0.79 -1.3
4,395,650 - PP_3871 0.79 -0.6
4,395,958 + PP_3873 0.30 +1.6
4,395,959 - PP_3873 0.30 -0.6
4,395,959 - PP_3873 0.30 +1.5
4,395,959 - PP_3873 0.30 +0.4
4,395,959 - PP_3873 0.30 +0.2
4,396,029 + PP_3873 0.44 -0.1
4,396,029 + PP_3873 0.44 +0.4
4,396,029 + PP_3873 0.44 -0.4
4,396,030 - PP_3873 0.44 -3.9
4,396,041 + PP_3873 0.46 -0.1
4,396,041 + PP_3873 0.46 +0.0
4,396,041 + PP_3873 0.46 -1.4
4,396,041 + PP_3873 0.46 -0.3
4,396,041 + PP_3873 0.46 +0.1
4,396,041 + PP_3873 0.46 -1.2
4,396,041 + PP_3873 0.46 -0.1
4,396,042 - PP_3873 0.46 -0.3
4,396,042 - PP_3873 0.46 -1.3
4,396,042 - PP_3873 0.46 +0.7
4,396,042 - PP_3873 0.46 -0.4
4,396,042 - PP_3873 0.46 +0.5
4,396,042 - PP_3873 0.46 -0.2
4,396,042 - PP_3873 0.46 +0.0
4,396,042 - PP_3873 0.46 +0.1
4,396,042 - PP_3873 0.46 +0.9
4,396,044 + PP_3873 0.47 +0.5
4,396,045 - PP_3873 0.47 +0.9
4,396,045 - PP_3873 0.47 -0.5
4,396,045 - PP_3873 0.47 -2.2
4,396,129 + PP_3873 0.63 -2.0
4,396,130 - PP_3873 0.63 +1.4
4,396,149 + PP_3873 0.67 -0.7
4,396,150 - PP_3873 0.67 -0.3
4,396,312 + +0.6
4,396,313 - -0.7
4,396,318 + -0.2
4,396,318 + -0.4
4,396,520 - PP_3874 0.56 +1.2
4,396,520 - PP_3874 0.56 -0.5
4,396,628 + PP_3874 0.85 +1.4
4,396,629 - PP_3874 0.85 -0.2
4,396,667 + +0.4
4,396,667 + +0.8
4,396,667 + +0.8
4,396,668 - +0.3
4,396,668 - -1.4
4,396,671 + -0.2
4,396,671 + -0.7
4,396,671 + -1.4
4,396,672 - -0.3
4,396,672 - -0.2
4,396,679 + +1.0
4,396,863 + PP_3875 0.32 +1.1
4,396,874 + PP_3875 0.34 +1.5
4,396,875 - PP_3875 0.34 +0.8
4,396,911 + PP_3875 0.40 +0.2
4,396,921 + PP_3875 0.42 -0.7
4,396,921 + PP_3875 0.42 +0.8
4,396,922 - PP_3875 0.42 -0.9
4,397,221 - -0.7
4,397,221 - -0.7
4,397,384 + PP_3876 0.43 +0.7
4,397,472 + PP_3876 0.70 -0.2
4,397,473 - PP_3876 0.71 -0.3
4,397,545 - +1.1
4,397,554 + -0.1

Or see this region's nucleotide sequence