Strain Fitness in Pseudomonas putida KT2440 around PP_0163

Experiment: Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.8X

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 ntPP_0161 and PP_0162 are separated by 4 nucleotidesPP_0162 and PP_0163 are separated by 88 nucleotidesPP_0163 and PP_0164 are separated by 272 nucleotidesPP_0164 and PP_0165 are separated by 10 nucleotides PP_0161: PP_0161 - putative transmembrane sensor, at 184,656 to 185,612 _0161 PP_0162: PP_0162 - RNA polymerase sigma-70 factor, ECF subfamily, at 185,617 to 186,138 _0162 PP_0163: PP_0163 - putative transcriptional regulator, at 186,227 to 186,916 _0163 PP_0164: PP_0164 - conserved protein of unknown function, at 187,189 to 187,881 _0164 PP_0165: PP_0165 - GGDEF domain protein, at 187,892 to 189,838 _0165 Position (kb) 186 187Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3 4at 185.447 kb on + strand, within PP_0161at 185.447 kb on + strand, within PP_0161at 185.447 kb on + strand, within PP_0161at 185.447 kb on + strand, within PP_0161at 185.447 kb on + strand, within PP_0161at 185.448 kb on - strand, within PP_0161at 185.448 kb on - strand, within PP_0161at 185.448 kb on - strand, within PP_0161at 185.462 kb on + strand, within PP_0161at 185.462 kb on + strand, within PP_0161at 185.463 kb on - strand, within PP_0161at 185.463 kb on - strand, within PP_0161at 185.633 kb on + strandat 185.645 kb on + strandat 185.645 kb on + strandat 185.654 kb on + strandat 185.654 kb on + strandat 185.655 kb on - strandat 185.655 kb on - strandat 185.655 kb on - strandat 185.672 kb on + strand, within PP_0162at 185.673 kb on - strand, within PP_0162at 185.673 kb on - strand, within PP_0162at 185.764 kb on + strand, within PP_0162at 185.764 kb on + strand, within PP_0162at 185.764 kb on + strand, within PP_0162at 185.800 kb on - strand, within PP_0162at 185.989 kb on + strand, within PP_0162at 185.989 kb on + strand, within PP_0162at 185.989 kb on + strand, within PP_0162at 185.990 kb on - strand, within PP_0162at 185.990 kb on - strand, within PP_0162at 185.990 kb on - strand, within PP_0162at 186.006 kb on + strand, within PP_0162at 186.006 kb on + strand, within PP_0162at 186.007 kb on - strand, within PP_0162at 186.051 kb on + strand, within PP_0162at 186.052 kb on - strand, within PP_0162at 186.063 kb on + strand, within PP_0162at 186.063 kb on + strand, within PP_0162at 186.063 kb on + strand, within PP_0162at 186.063 kb on + strand, within PP_0162at 186.063 kb on + strand, within PP_0162at 186.063 kb on + strand, within PP_0162at 186.064 kb on - strand, within PP_0162at 186.064 kb on - strand, within PP_0162at 186.089 kb on + strandat 186.090 kb on - strandat 186.090 kb on - strandat 186.090 kb on - strandat 186.159 kb on + strandat 186.185 kb on + strandat 186.205 kb on - strandat 186.220 kb on + strandat 186.229 kb on - strandat 186.252 kb on + strandat 186.253 kb on - strandat 186.338 kb on + strand, within PP_0163at 186.338 kb on + strand, within PP_0163at 186.339 kb on - strand, within PP_0163at 186.446 kb on + strand, within PP_0163at 186.446 kb on + strand, within PP_0163at 186.447 kb on - strand, within PP_0163at 186.447 kb on - strand, within PP_0163at 186.471 kb on + strand, within PP_0163at 186.472 kb on - strand, within PP_0163at 186.472 kb on - strand, within PP_0163at 186.545 kb on - strand, within PP_0163at 186.545 kb on - strand, within PP_0163at 186.547 kb on - strand, within PP_0163at 186.547 kb on - strand, within PP_0163at 186.620 kb on + strand, within PP_0163at 186.633 kb on + strand, within PP_0163at 186.633 kb on + strand, within PP_0163at 186.633 kb on + strand, within PP_0163at 186.633 kb on + strand, within PP_0163at 186.633 kb on + strand, within PP_0163at 186.633 kb on + strand, within PP_0163at 186.633 kb on + strand, within PP_0163at 186.634 kb on - strand, within PP_0163at 186.634 kb on - strand, within PP_0163at 186.634 kb on - strand, within PP_0163at 186.634 kb on - strand, within PP_0163at 186.634 kb on - strand, within PP_0163at 186.634 kb on - strand, within PP_0163at 186.759 kb on + strand, within PP_0163at 186.759 kb on + strand, within PP_0163at 186.794 kb on - strand, within PP_0163at 186.942 kb on + strandat 186.942 kb on + strandat 186.960 kb on + strandat 186.960 kb on + strandat 186.961 kb on - strandat 186.961 kb on - strandat 186.963 kb on + strandat 186.963 kb on + strandat 186.964 kb on - strandat 186.964 kb on - strandat 187.026 kb on - strandat 187.026 kb on - strandat 187.026 kb on - strandat 187.061 kb on + strandat 187.217 kb on + strandat 187.217 kb on + strandat 187.225 kb on + strandat 187.225 kb on + strandat 187.226 kb on - strandat 187.226 kb on - strandat 187.331 kb on + strand, within PP_0164at 187.331 kb on + strand, within PP_0164at 187.331 kb on + strand, within PP_0164at 187.332 kb on - strand, within PP_0164at 187.332 kb on - strand, within PP_0164at 187.332 kb on - strand, within PP_0164at 187.332 kb on - strand, within PP_0164at 187.332 kb on - strand, within PP_0164at 187.448 kb on - strand, within PP_0164at 187.484 kb on - strand, within PP_0164at 187.484 kb on - strand, within PP_0164at 187.552 kb on + strand, within PP_0164at 187.603 kb on + strand, within PP_0164at 187.603 kb on + strand, within PP_0164at 187.648 kb on + strand, within PP_0164at 187.649 kb on - strand, within PP_0164at 187.651 kb on + strand, within PP_0164at 187.652 kb on - strand, within PP_0164at 187.652 kb on - strand, within PP_0164at 187.652 kb on - strand, within PP_0164at 187.652 kb on - strand, within PP_0164at 187.741 kb on + strand, within PP_0164at 187.742 kb on - strand, within PP_0164at 187.742 kb on - strand, within PP_0164at 187.742 kb on - strand, within PP_0164at 187.804 kb on - strand, within PP_0164at 187.876 kb on + strand

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.8X
remove
185,447 + PP_0161 0.83 -0.3
185,447 + PP_0161 0.83 -0.1
185,447 + PP_0161 0.83 +0.3
185,447 + PP_0161 0.83 -1.3
185,447 + PP_0161 0.83 -0.0
185,448 - PP_0161 0.83 -0.4
185,448 - PP_0161 0.83 -1.3
185,448 - PP_0161 0.83 -2.5
185,462 + PP_0161 0.84 +1.1
185,462 + PP_0161 0.84 +1.1
185,463 - PP_0161 0.84 +0.3
185,463 - PP_0161 0.84 +0.4
185,633 + +0.2
185,645 + -0.3
185,645 + -0.9
185,654 + +0.2
185,654 + +1.4
185,655 - -0.7
185,655 - -0.8
185,655 - -1.5
185,672 + PP_0162 0.11 -0.5
185,673 - PP_0162 0.11 -0.1
185,673 - PP_0162 0.11 -0.1
185,764 + PP_0162 0.28 +0.2
185,764 + PP_0162 0.28 +0.0
185,764 + PP_0162 0.28 +0.7
185,800 - PP_0162 0.35 +0.3
185,989 + PP_0162 0.71 -2.5
185,989 + PP_0162 0.71 +1.6
185,989 + PP_0162 0.71 +1.2
185,990 - PP_0162 0.71 +1.1
185,990 - PP_0162 0.71 -0.2
185,990 - PP_0162 0.71 +0.9
186,006 + PP_0162 0.75 -0.8
186,006 + PP_0162 0.75 +0.1
186,007 - PP_0162 0.75 -3.0
186,051 + PP_0162 0.83 +0.8
186,052 - PP_0162 0.83 +0.9
186,063 + PP_0162 0.85 -0.5
186,063 + PP_0162 0.85 +0.3
186,063 + PP_0162 0.85 -0.0
186,063 + PP_0162 0.85 -1.5
186,063 + PP_0162 0.85 -0.4
186,063 + PP_0162 0.85 +4.5
186,064 - PP_0162 0.86 -0.2
186,064 - PP_0162 0.86 -1.0
186,089 + -0.3
186,090 - +0.4
186,090 - -0.5
186,090 - +1.0
186,159 + -0.9
186,185 + -2.2
186,205 - -0.3
186,220 + -0.0
186,229 - -0.6
186,252 + -1.6
186,253 - -1.5
186,338 + PP_0163 0.16 +0.4
186,338 + PP_0163 0.16 +0.0
186,339 - PP_0163 0.16 -1.5
186,446 + PP_0163 0.32 -0.4
186,446 + PP_0163 0.32 -2.1
186,447 - PP_0163 0.32 -1.9
186,447 - PP_0163 0.32 -0.4
186,471 + PP_0163 0.35 -0.3
186,472 - PP_0163 0.36 -1.0
186,472 - PP_0163 0.36 -2.1
186,545 - PP_0163 0.46 +1.7
186,545 - PP_0163 0.46 -0.3
186,547 - PP_0163 0.46 -0.3
186,547 - PP_0163 0.46 +0.1
186,620 + PP_0163 0.57 -0.0
186,633 + PP_0163 0.59 -0.3
186,633 + PP_0163 0.59 -1.5
186,633 + PP_0163 0.59 -0.7
186,633 + PP_0163 0.59 -1.1
186,633 + PP_0163 0.59 -0.5
186,633 + PP_0163 0.59 -0.5
186,633 + PP_0163 0.59 -1.1
186,634 - PP_0163 0.59 +0.2
186,634 - PP_0163 0.59 -1.3
186,634 - PP_0163 0.59 -0.8
186,634 - PP_0163 0.59 -1.8
186,634 - PP_0163 0.59 -0.1
186,634 - PP_0163 0.59 -1.3
186,759 + PP_0163 0.77 -1.4
186,759 + PP_0163 0.77 -2.1
186,794 - PP_0163 0.82 -0.7
186,942 + -2.9
186,942 + -0.8
186,960 + -2.6
186,960 + -0.3
186,961 - +1.2
186,961 - +0.4
186,963 + -1.3
186,963 + -0.2
186,964 - +0.7
186,964 - +1.4
187,026 - +1.1
187,026 - +0.7
187,026 - +1.3
187,061 + -1.0
187,217 + -2.8
187,217 + -0.4
187,225 + -1.7
187,225 + -0.6
187,226 - -1.2
187,226 - -0.4
187,331 + PP_0164 0.20 -2.0
187,331 + PP_0164 0.20 -1.1
187,331 + PP_0164 0.20 -1.5
187,332 - PP_0164 0.21 -0.9
187,332 - PP_0164 0.21 -0.7
187,332 - PP_0164 0.21 +0.0
187,332 - PP_0164 0.21 -1.4
187,332 - PP_0164 0.21 -0.0
187,448 - PP_0164 0.37 -0.2
187,484 - PP_0164 0.43 -0.1
187,484 - PP_0164 0.43 +0.4
187,552 + PP_0164 0.52 -2.3
187,603 + PP_0164 0.60 -1.1
187,603 + PP_0164 0.60 -0.3
187,648 + PP_0164 0.66 -0.4
187,649 - PP_0164 0.66 -2.7
187,651 + PP_0164 0.67 -2.4
187,652 - PP_0164 0.67 -2.0
187,652 - PP_0164 0.67 -2.7
187,652 - PP_0164 0.67 -0.9
187,652 - PP_0164 0.67 -1.3
187,741 + PP_0164 0.80 -2.2
187,742 - PP_0164 0.80 -1.6
187,742 - PP_0164 0.80 -2.3
187,742 - PP_0164 0.80 -0.3
187,804 - PP_0164 0.89 -2.0
187,876 + -1.4

Or see this region's nucleotide sequence