Strain Fitness in Pseudomonas putida KT2440 around PP_0174

Experiment: Parafilmed volatile agar plate with Trichoderma atroviridae IMI ago3mutant

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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_0172 and PP_0173 are separated by 117 nucleotidesPP_0173 and PP_0174 are separated by 114 nucleotidesPP_0174 and PP_0175 are separated by 132 nucleotidesPP_0175 and PP_0176 overlap by 4 nucleotides PP_0172: PP_0172 - ABC transporter, permease protein, at 224,050 to 224,913 _0172 PP_0173: PP_0173 - putative transcriptional factor-related protein, at 225,031 to 225,660 _0173 PP_0174: PP_0174 - conserved protein of unknown function, at 225,775 to 226,593 _0174 PP_0175: PP_0175 - putative transcriptional regulator, at 226,726 to 227,178 _0175 PP_0176: PP_0176 - putative efflux transporter, at 227,175 to 229,262 _0176 Position (kb) 225 226 227Strain fitness (log2 ratio) -2 -1 0 1at 224.794 kb on + strand, within PP_0172at 224.795 kb on - strand, within PP_0172at 224.796 kb on + strand, within PP_0172at 224.868 kb on + strandat 224.919 kb on - strandat 224.954 kb on + strandat 224.954 kb on + strandat 225.044 kb on + strandat 225.045 kb on - strandat 225.106 kb on + strand, within PP_0173at 225.106 kb on + strand, within PP_0173at 225.107 kb on - strand, within PP_0173at 225.146 kb on - strand, within PP_0173at 225.163 kb on + strand, within PP_0173at 225.164 kb on - strand, within PP_0173at 225.512 kb on - strand, within PP_0173at 225.512 kb on - strand, within PP_0173at 225.512 kb on - strand, within PP_0173at 225.512 kb on - strand, within PP_0173at 225.512 kb on - strand, within PP_0173at 225.597 kb on - strand, within PP_0173at 225.609 kb on + strandat 225.623 kb on + strandat 225.623 kb on + strandat 225.623 kb on + strandat 225.623 kb on + strandat 225.624 kb on - strandat 225.816 kb on + strandat 225.828 kb on - strandat 225.974 kb on - strand, within PP_0174at 225.974 kb on - strand, within PP_0174at 226.054 kb on + strand, within PP_0174at 226.151 kb on - strand, within PP_0174at 226.177 kb on + strand, within PP_0174at 226.177 kb on + strand, within PP_0174at 226.177 kb on + strand, within PP_0174at 226.177 kb on + strand, within PP_0174at 226.177 kb on + strand, within PP_0174at 226.177 kb on + strand, within PP_0174at 226.177 kb on + strand, within PP_0174at 226.177 kb on + strand, within PP_0174at 226.178 kb on - strand, within PP_0174at 226.178 kb on - strand, within PP_0174at 226.178 kb on - strand, within PP_0174at 226.178 kb on - strand, within PP_0174at 226.178 kb on - strand, within PP_0174at 226.255 kb on + strand, within PP_0174at 226.255 kb on + strand, within PP_0174at 226.255 kb on + strand, within PP_0174at 226.256 kb on - strand, within PP_0174at 226.256 kb on - strand, within PP_0174at 226.256 kb on - strandat 226.256 kb on - strand, within PP_0174at 226.256 kb on - strand, within PP_0174at 226.256 kb on - strand, within PP_0174at 226.256 kb on - strand, within PP_0174at 226.312 kb on + strand, within PP_0174at 226.312 kb on + strand, within PP_0174at 226.313 kb on - strand, within PP_0174at 226.397 kb on + strand, within PP_0174at 226.397 kb on + strand, within PP_0174at 226.397 kb on + strand, within PP_0174at 226.397 kb on + strand, within PP_0174at 226.398 kb on - strand, within PP_0174at 226.398 kb on - strandat 226.398 kb on - strand, within PP_0174at 226.398 kb on - strand, within PP_0174at 226.424 kb on - strand, within PP_0174at 226.511 kb on - strand, within PP_0174at 226.595 kb on + strandat 226.634 kb on - strandat 226.769 kb on + strandat 227.220 kb on + strandat 227.260 kb on - strandat 227.313 kb on + strandat 227.313 kb on + strandat 227.313 kb on + strandat 227.313 kb on + strandat 227.313 kb on + strandat 227.313 kb on + strandat 227.313 kb on + strandat 227.314 kb on - strandat 227.314 kb on - strandat 227.511 kb on + strand, within PP_0176at 227.512 kb on - strand, within PP_0176at 227.512 kb on - strand, within PP_0176at 227.512 kb on - strand, within PP_0176at 227.534 kb on + strand, within PP_0176at 227.534 kb on + strand, within PP_0176at 227.534 kb on + strand, within PP_0176at 227.534 kb on + strand, within PP_0176at 227.535 kb on - strand, within PP_0176

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Per-strain Table

Position Strand Gene LocusTag Fraction Parafilmed volatile agar plate with Trichoderma atroviridae IMI ago3mutant
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224,794 + PP_0172 0.86 -0.3
224,795 - PP_0172 0.86 +1.4
224,796 + PP_0172 0.86 -1.4
224,868 + -1.5
224,919 - -1.3
224,954 + -0.4
224,954 + -2.5
225,044 + -1.2
225,045 - +0.2
225,106 + PP_0173 0.12 -0.2
225,106 + PP_0173 0.12 +1.4
225,107 - PP_0173 0.12 -2.3
225,146 - PP_0173 0.18 -0.3
225,163 + PP_0173 0.21 -0.3
225,164 - PP_0173 0.21 +0.0
225,512 - PP_0173 0.76 -1.6
225,512 - PP_0173 0.76 -1.3
225,512 - PP_0173 0.76 +0.3
225,512 - PP_0173 0.76 -1.1
225,512 - PP_0173 0.76 -0.5
225,597 - PP_0173 0.90 -0.9
225,609 + +0.8
225,623 + -2.3
225,623 + -0.9
225,623 + +1.0
225,623 + +1.1
225,624 - +0.3
225,816 + -1.7
225,828 - -0.8
225,974 - PP_0174 0.24 -2.5
225,974 - PP_0174 0.24 -0.2
226,054 + PP_0174 0.34 -0.8
226,151 - PP_0174 0.46 -2.0
226,177 + PP_0174 0.49 -0.1
226,177 + PP_0174 0.49 -2.2
226,177 + PP_0174 0.49 -0.2
226,177 + PP_0174 0.49 -0.6
226,177 + PP_0174 0.49 -0.3
226,177 + PP_0174 0.49 -1.7
226,177 + PP_0174 0.49 +0.1
226,177 + PP_0174 0.49 -1.7
226,178 - PP_0174 0.49 -0.6
226,178 - PP_0174 0.49 -0.6
226,178 - PP_0174 0.49 -0.6
226,178 - PP_0174 0.49 -0.9
226,178 - PP_0174 0.49 +0.5
226,255 + PP_0174 0.59 -1.3
226,255 + PP_0174 0.59 -2.5
226,255 + PP_0174 0.59 +1.2
226,256 - PP_0174 0.59 -2.5
226,256 - PP_0174 0.59 -0.5
226,256 - +0.7
226,256 - PP_0174 0.59 -0.4
226,256 - PP_0174 0.59 -0.3
226,256 - PP_0174 0.59 -1.0
226,256 - PP_0174 0.59 +0.4
226,312 + PP_0174 0.66 -2.7
226,312 + PP_0174 0.66 -1.5
226,313 - PP_0174 0.66 -1.0
226,397 + PP_0174 0.76 -1.5
226,397 + PP_0174 0.76 -1.6
226,397 + PP_0174 0.76 -0.8
226,397 + PP_0174 0.76 -0.1
226,398 - PP_0174 0.76 -1.1
226,398 - +0.7
226,398 - PP_0174 0.76 +0.3
226,398 - PP_0174 0.76 -0.1
226,424 - PP_0174 0.79 -0.9
226,511 - PP_0174 0.90 -0.8
226,595 + -0.9
226,634 - -1.1
226,769 + -1.0
227,220 + +0.3
227,260 - -2.4
227,313 + -0.2
227,313 + -1.3
227,313 + -0.0
227,313 + -1.2
227,313 + -1.4
227,313 + -0.6
227,313 + -2.4
227,314 - -0.8
227,314 - -1.2
227,511 + PP_0176 0.16 -1.3
227,512 - PP_0176 0.16 -1.1
227,512 - PP_0176 0.16 -0.7
227,512 - PP_0176 0.16 -1.7
227,534 + PP_0176 0.17 +0.0
227,534 + PP_0176 0.17 +0.7
227,534 + PP_0176 0.17 +0.2
227,534 + PP_0176 0.17 -0.2
227,535 - PP_0176 0.17 -2.5

Or see this region's nucleotide sequence