Strain Fitness in Pseudomonas sp. RS175 around PFR28_00040

Experiment: Cytidine (C)

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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_00038 and PFR28_00039 are separated by 31 nucleotidesPFR28_00039 and PFR28_00040 are separated by 21 nucleotidesPFR28_00040 and PFR28_00041 are separated by 168 nucleotidesPFR28_00041 and PFR28_00042 are separated by 200 nucleotides PFR28_00038: PFR28_00038 - hypothetical protein, at 47,823 to 47,963 _00038 PFR28_00039: PFR28_00039 - 3-oxoacyl-[acyl-carrier-protein] reductase FabG, at 47,995 to 48,828 _00039 PFR28_00040: PFR28_00040 - HTH-type transcriptional activator RhaS, at 48,850 to 49,788 _00040 PFR28_00041: PFR28_00041 - Leucine-responsive regulatory protein, at 49,957 to 50,466 _00041 PFR28_00042: PFR28_00042 - 1-aminocyclopropane-1-carboxylate deaminase, at 50,667 to 51,683 _00042 Position (kb) 48 49 50Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 47.908 kb on + strand, within PFR28_00038at 47.909 kb on - strand, within PFR28_00038at 47.935 kb on + strand, within PFR28_00038at 47.935 kb on + strand, within PFR28_00038at 47.936 kb on - strand, within PFR28_00038at 47.936 kb on - strand, within PFR28_00038at 47.936 kb on - strand, within PFR28_00038at 47.936 kb on - strand, within PFR28_00038at 47.936 kb on - strand, within PFR28_00038at 47.936 kb on - strand, within PFR28_00038at 47.980 kb on + strandat 48.014 kb on + strandat 48.014 kb on + strandat 48.014 kb on + strandat 48.014 kb on + strandat 48.209 kb on + strand, within PFR28_00039at 48.209 kb on + strand, within PFR28_00039at 48.209 kb on + strand, within PFR28_00039at 48.209 kb on + strand, within PFR28_00039at 48.209 kb on + strand, within PFR28_00039at 48.209 kb on + strand, within PFR28_00039at 48.210 kb on - strand, within PFR28_00039at 48.210 kb on - strand, within PFR28_00039at 48.210 kb on - strand, within PFR28_00039at 48.236 kb on + strand, within PFR28_00039at 48.236 kb on + strand, within PFR28_00039at 48.236 kb on + strand, within PFR28_00039at 48.236 kb on + strand, within PFR28_00039at 48.237 kb on - strand, within PFR28_00039at 48.237 kb on - strand, within PFR28_00039at 48.361 kb on + strand, within PFR28_00039at 48.388 kb on - strand, within PFR28_00039at 48.388 kb on - strand, within PFR28_00039at 48.388 kb on - strand, within PFR28_00039at 48.396 kb on + strand, within PFR28_00039at 48.397 kb on - strand, within PFR28_00039at 48.439 kb on + strand, within PFR28_00039at 48.439 kb on + strand, within PFR28_00039at 48.440 kb on - strand, within PFR28_00039at 48.440 kb on - strand, within PFR28_00039at 48.442 kb on + strand, within PFR28_00039at 48.442 kb on + strand, within PFR28_00039at 48.443 kb on - strand, within PFR28_00039at 48.443 kb on - strand, within PFR28_00039at 48.443 kb on - strand, within PFR28_00039at 48.443 kb on - strand, within PFR28_00039at 48.576 kb on + strand, within PFR28_00039at 48.577 kb on - strand, within PFR28_00039at 48.599 kb on - strand, within PFR28_00039at 48.919 kb on + strandat 48.919 kb on + strandat 48.919 kb on + strandat 48.920 kb on - strandat 48.920 kb on - strandat 48.920 kb on - strandat 48.920 kb on - strandat 49.054 kb on + strand, within PFR28_00040at 49.054 kb on + strand, within PFR28_00040at 49.054 kb on + strand, within PFR28_00040at 49.054 kb on + strand, within PFR28_00040at 49.054 kb on + strand, within PFR28_00040at 49.054 kb on + strand, within PFR28_00040at 49.054 kb on + strand, within PFR28_00040at 49.055 kb on - strand, within PFR28_00040at 49.055 kb on - strand, within PFR28_00040at 49.055 kb on - strand, within PFR28_00040at 49.055 kb on - strand, within PFR28_00040at 49.055 kb on - strand, within PFR28_00040at 49.060 kb on + strand, within PFR28_00040at 49.060 kb on + strand, within PFR28_00040at 49.060 kb on + strand, within PFR28_00040at 49.061 kb on - strand, within PFR28_00040at 49.076 kb on - strand, within PFR28_00040at 49.076 kb on - strand, within PFR28_00040at 49.150 kb on + strand, within PFR28_00040at 49.150 kb on + strand, within PFR28_00040at 49.151 kb on - strand, within PFR28_00040at 49.151 kb on - strand, within PFR28_00040at 49.151 kb on - strand, within PFR28_00040at 49.151 kb on - strand, within PFR28_00040at 49.151 kb on - strand, within PFR28_00040at 49.151 kb on - strand, within PFR28_00040at 49.240 kb on + strand, within PFR28_00040at 49.240 kb on + strand, within PFR28_00040at 49.240 kb on + strand, within PFR28_00040at 49.240 kb on + strand, within PFR28_00040at 49.240 kb on + strand, within PFR28_00040at 49.241 kb on - strand, within PFR28_00040at 49.241 kb on - strand, within PFR28_00040at 49.241 kb on - strand, within PFR28_00040at 49.241 kb on - strand, within PFR28_00040at 49.241 kb on - strand, within PFR28_00040at 49.241 kb on - strand, within PFR28_00040at 49.241 kb on - strand, within PFR28_00040at 49.241 kb on - strand, within PFR28_00040at 49.323 kb on - strand, within PFR28_00040at 49.323 kb on - strand, within PFR28_00040at 49.351 kb on + strand, within PFR28_00040at 49.511 kb on + strand, within PFR28_00040at 49.511 kb on + strand, within PFR28_00040at 49.564 kb on + strand, within PFR28_00040at 49.564 kb on + strand, within PFR28_00040at 49.565 kb on - strand, within PFR28_00040at 49.565 kb on - strand, within PFR28_00040at 49.565 kb on - strand, within PFR28_00040at 49.565 kb on - strand, within PFR28_00040at 49.565 kb on - strand, within PFR28_00040at 49.565 kb on - strand, within PFR28_00040at 49.738 kb on + strandat 49.738 kb on + strandat 49.738 kb on + strandat 49.738 kb on + strandat 49.739 kb on - strandat 49.739 kb on - strandat 49.771 kb on + strandat 49.771 kb on + strandat 49.771 kb on + strandat 49.771 kb on + strandat 49.771 kb on + strandat 49.772 kb on - strandat 49.772 kb on - strandat 49.772 kb on - strandat 49.772 kb on - strandat 49.772 kb on - strandat 49.772 kb on - strandat 49.772 kb on - strandat 49.786 kb on + strandat 49.787 kb on - strandat 49.830 kb on - strandat 49.858 kb on - strandat 50.034 kb on - strand, within PFR28_00041at 50.034 kb on - strand, within PFR28_00041at 50.034 kb on - strand, within PFR28_00041at 50.087 kb on - strand, within PFR28_00041at 50.099 kb on + strand, within PFR28_00041at 50.100 kb on - strand, within PFR28_00041at 50.451 kb on + strandat 50.550 kb on - strandat 50.568 kb on - strandat 50.570 kb on + strandat 50.570 kb on + strandat 50.570 kb on + strandat 50.570 kb on + strandat 50.571 kb on - strandat 50.571 kb on - strandat 50.571 kb on - strandat 50.685 kb on - strandat 50.769 kb on + strand, within PFR28_00042at 50.769 kb on + strand, within PFR28_00042at 50.770 kb on - strand, within PFR28_00042at 50.770 kb on - strand, within PFR28_00042at 50.770 kb on - strand, within PFR28_00042at 50.770 kb on - strand, within PFR28_00042

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Per-strain Table

Position Strand Gene LocusTag Fraction Cytidine (C)
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47,908 + PFR28_00038 0.60 +3.2
47,909 - PFR28_00038 0.61 +0.2
47,935 + PFR28_00038 0.79 +0.9
47,935 + PFR28_00038 0.79 +0.4
47,936 - PFR28_00038 0.80 +0.6
47,936 - PFR28_00038 0.80 +1.3
47,936 - PFR28_00038 0.80 +1.1
47,936 - PFR28_00038 0.80 -2.8
47,936 - PFR28_00038 0.80 +0.8
47,936 - PFR28_00038 0.80 -1.8
47,980 + -0.6
48,014 + -2.5
48,014 + +1.3
48,014 + +0.3
48,014 + -0.1
48,209 + PFR28_00039 0.26 +0.8
48,209 + PFR28_00039 0.26 -1.0
48,209 + PFR28_00039 0.26 -0.6
48,209 + PFR28_00039 0.26 +0.5
48,209 + PFR28_00039 0.26 -0.0
48,209 + PFR28_00039 0.26 -0.3
48,210 - PFR28_00039 0.26 +0.6
48,210 - PFR28_00039 0.26 -1.7
48,210 - PFR28_00039 0.26 +1.1
48,236 + PFR28_00039 0.29 -0.4
48,236 + PFR28_00039 0.29 -1.7
48,236 + PFR28_00039 0.29 -2.4
48,236 + PFR28_00039 0.29 +0.6
48,237 - PFR28_00039 0.29 -0.2
48,237 - PFR28_00039 0.29 -1.9
48,361 + PFR28_00039 0.44 -1.0
48,388 - PFR28_00039 0.47 +0.3
48,388 - PFR28_00039 0.47 -2.4
48,388 - PFR28_00039 0.47 +0.2
48,396 + PFR28_00039 0.48 +0.6
48,397 - PFR28_00039 0.48 -0.4
48,439 + PFR28_00039 0.53 -0.8
48,439 + PFR28_00039 0.53 -3.1
48,440 - PFR28_00039 0.53 +1.3
48,440 - PFR28_00039 0.53 +0.4
48,442 + PFR28_00039 0.54 -1.0
48,442 + PFR28_00039 0.54 -1.9
48,443 - PFR28_00039 0.54 +0.6
48,443 - PFR28_00039 0.54 +0.3
48,443 - PFR28_00039 0.54 -1.0
48,443 - PFR28_00039 0.54 -0.8
48,576 + PFR28_00039 0.70 -1.0
48,577 - PFR28_00039 0.70 -0.5
48,599 - PFR28_00039 0.72 +0.7
48,919 + +0.3
48,919 + +1.0
48,919 + +0.9
48,920 - -0.1
48,920 - +0.6
48,920 - -1.3
48,920 - +1.0
49,054 + PFR28_00040 0.22 -0.8
49,054 + PFR28_00040 0.22 -2.4
49,054 + PFR28_00040 0.22 +1.5
49,054 + PFR28_00040 0.22 +0.5
49,054 + PFR28_00040 0.22 -0.7
49,054 + PFR28_00040 0.22 -0.9
49,054 + PFR28_00040 0.22 +0.1
49,055 - PFR28_00040 0.22 +0.4
49,055 - PFR28_00040 0.22 +0.1
49,055 - PFR28_00040 0.22 +0.1
49,055 - PFR28_00040 0.22 +1.9
49,055 - PFR28_00040 0.22 +0.8
49,060 + PFR28_00040 0.22 -1.6
49,060 + PFR28_00040 0.22 -3.1
49,060 + PFR28_00040 0.22 -0.3
49,061 - PFR28_00040 0.22 +0.5
49,076 - PFR28_00040 0.24 +0.3
49,076 - PFR28_00040 0.24 -2.6
49,150 + PFR28_00040 0.32 -0.1
49,150 + PFR28_00040 0.32 +0.1
49,151 - PFR28_00040 0.32 +0.9
49,151 - PFR28_00040 0.32 -0.5
49,151 - PFR28_00040 0.32 -0.8
49,151 - PFR28_00040 0.32 -3.5
49,151 - PFR28_00040 0.32 -0.1
49,151 - PFR28_00040 0.32 -0.1
49,240 + PFR28_00040 0.42 -1.1
49,240 + PFR28_00040 0.42 -0.0
49,240 + PFR28_00040 0.42 +0.4
49,240 + PFR28_00040 0.42 +0.7
49,240 + PFR28_00040 0.42 +1.8
49,241 - PFR28_00040 0.42 +1.0
49,241 - PFR28_00040 0.42 -0.6
49,241 - PFR28_00040 0.42 +0.2
49,241 - PFR28_00040 0.42 -0.2
49,241 - PFR28_00040 0.42 +1.1
49,241 - PFR28_00040 0.42 -1.2
49,241 - PFR28_00040 0.42 -0.8
49,241 - PFR28_00040 0.42 +0.7
49,323 - PFR28_00040 0.50 +0.2
49,323 - PFR28_00040 0.50 -0.3
49,351 + PFR28_00040 0.53 +0.6
49,511 + PFR28_00040 0.70 -0.9
49,511 + PFR28_00040 0.70 -2.5
49,564 + PFR28_00040 0.76 +0.8
49,564 + PFR28_00040 0.76 -1.2
49,565 - PFR28_00040 0.76 -0.8
49,565 - PFR28_00040 0.76 +0.5
49,565 - PFR28_00040 0.76 -1.5
49,565 - PFR28_00040 0.76 +0.2
49,565 - PFR28_00040 0.76 -1.4
49,565 - PFR28_00040 0.76 -0.1
49,738 + -1.5
49,738 + +0.7
49,738 + -0.4
49,738 + -0.2
49,739 - -0.2
49,739 - -0.4
49,771 + -1.5
49,771 + +2.1
49,771 + -0.7
49,771 + +0.1
49,771 + -1.4
49,772 - -0.4
49,772 - -1.0
49,772 - -0.5
49,772 - +1.0
49,772 - -0.3
49,772 - +0.0
49,772 - +0.3
49,786 + +0.7
49,787 - -0.6
49,830 - +1.8
49,858 - -0.0
50,034 - PFR28_00041 0.15 -0.8
50,034 - PFR28_00041 0.15 -1.8
50,034 - PFR28_00041 0.15 +0.3
50,087 - PFR28_00041 0.25 -3.8
50,099 + PFR28_00041 0.28 -0.8
50,100 - PFR28_00041 0.28 -2.1
50,451 + +1.7
50,550 - +2.8
50,568 - +2.8
50,570 + -0.1
50,570 + +0.0
50,570 + -0.5
50,570 + +1.3
50,571 - +2.3
50,571 - +3.0
50,571 - +2.8
50,685 - +1.9
50,769 + PFR28_00042 0.10 -0.4
50,769 + PFR28_00042 0.10 -0.1
50,770 - PFR28_00042 0.10 +3.2
50,770 - PFR28_00042 0.10 +3.1
50,770 - PFR28_00042 0.10 +3.3
50,770 - PFR28_00042 0.10 +1.8

Or see this region's nucleotide sequence