Strain Fitness in Pseudomonas putida KT2440 around PP_1682

Experiment: 48hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% DO.

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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_1680 and PP_1681 overlap by 32 nucleotidesPP_1681 and PP_1682 are separated by 153 nucleotidesPP_1682 and PP_1683 are separated by 62 nucleotidesPP_1683 and PP_1684 are separated by 44 nucleotides PP_1680: PP_1680 - alpha-ribazole-5'-phosphate phosphatase, at 1,874,742 to 1,875,308 _1680 PP_1681: PP_1681 - cobalamin 5'-phosphate synthase / Cobalamin synthase, at 1,875,277 to 1,876,032 _1681 PP_1682: PP_1682 - putative glycoside hydrolase family protein, at 1,876,186 to 1,877,367 _1682 PP_1683: PP_1683 - Transcriptional regulator, MarR family, at 1,877,430 to 1,877,834 _1683 PP_1684: PP_1684 - putative Transporter, at 1,877,879 to 1,879,099 _1684 Position (kb) 1876 1877 1878Strain fitness (log2 ratio) -2 -1 0 1 2 3 4at 1875.193 kb on + strand, within PP_1680at 1875.406 kb on + strand, within PP_1681at 1875.406 kb on + strand, within PP_1681at 1875.407 kb on - strand, within PP_1681at 1875.407 kb on - strand, within PP_1681at 1875.407 kb on - strand, within PP_1681at 1875.464 kb on + strand, within PP_1681at 1875.464 kb on + strand, within PP_1681at 1875.472 kb on - strand, within PP_1681at 1875.515 kb on + strand, within PP_1681at 1875.516 kb on - strand, within PP_1681at 1875.572 kb on + strand, within PP_1681at 1875.572 kb on + strand, within PP_1681at 1875.771 kb on + strand, within PP_1681at 1875.771 kb on + strand, within PP_1681at 1875.771 kb on + strand, within PP_1681at 1875.771 kb on + strand, within PP_1681at 1875.771 kb on + strand, within PP_1681at 1875.771 kb on + strand, within PP_1681at 1875.772 kb on - strand, within PP_1681at 1875.777 kb on + strand, within PP_1681at 1875.778 kb on + strand, within PP_1681at 1875.778 kb on + strand, within PP_1681at 1875.778 kb on + strand, within PP_1681at 1875.778 kb on + strand, within PP_1681at 1875.779 kb on - strand, within PP_1681at 1875.779 kb on - strand, within PP_1681at 1875.779 kb on - strand, within PP_1681at 1875.779 kb on - strand, within PP_1681at 1875.779 kb on - strand, within PP_1681at 1875.819 kb on + strand, within PP_1681at 1875.819 kb on + strand, within PP_1681at 1875.819 kb on + strand, within PP_1681at 1875.819 kb on + strand, within PP_1681at 1875.819 kb on + strand, within PP_1681at 1875.819 kb on + strand, within PP_1681at 1875.819 kb on + strand, within PP_1681at 1875.819 kb on + strand, within PP_1681at 1875.820 kb on - strand, within PP_1681at 1875.820 kb on - strand, within PP_1681at 1875.820 kb on - strand, within PP_1681at 1875.820 kb on - strand, within PP_1681at 1875.820 kb on - strand, within PP_1681at 1875.820 kb on - strand, within PP_1681at 1876.007 kb on + strandat 1876.102 kb on - strandat 1876.148 kb on + strandat 1876.176 kb on + strandat 1876.176 kb on + strandat 1876.177 kb on - strandat 1876.177 kb on - strandat 1876.211 kb on + strandat 1876.211 kb on + strandat 1876.211 kb on + strandat 1876.211 kb on + strandat 1876.212 kb on - strandat 1876.417 kb on - strand, within PP_1682at 1876.420 kb on + strand, within PP_1682at 1876.420 kb on + strand, within PP_1682at 1876.421 kb on - strand, within PP_1682at 1876.421 kb on - strand, within PP_1682at 1876.421 kb on - strand, within PP_1682at 1876.585 kb on + strand, within PP_1682at 1876.618 kb on - strand, within PP_1682at 1876.657 kb on + strand, within PP_1682at 1876.658 kb on - strand, within PP_1682at 1876.738 kb on + strand, within PP_1682at 1876.739 kb on - strand, within PP_1682at 1876.849 kb on + strand, within PP_1682at 1876.850 kb on - strand, within PP_1682at 1876.850 kb on - strand, within PP_1682at 1876.910 kb on - strand, within PP_1682at 1876.910 kb on - strand, within PP_1682at 1876.924 kb on + strand, within PP_1682at 1876.924 kb on + strand, within PP_1682at 1876.924 kb on + strand, within PP_1682at 1876.924 kb on + strand, within PP_1682at 1876.924 kb on + strand, within PP_1682at 1876.924 kb on + strand, within PP_1682at 1876.924 kb on + strand, within PP_1682at 1876.924 kb on + strand, within PP_1682at 1876.924 kb on + strand, within PP_1682at 1876.924 kb on + strand, within PP_1682at 1876.924 kb on + strand, within PP_1682at 1876.924 kb on + strand, within PP_1682at 1876.925 kb on - strand, within PP_1682at 1876.925 kb on - strandat 1876.925 kb on - strand, within PP_1682at 1876.925 kb on - strand, within PP_1682at 1876.925 kb on - strand, within PP_1682at 1877.045 kb on - strand, within PP_1682at 1877.149 kb on + strand, within PP_1682at 1877.162 kb on + strand, within PP_1682at 1877.162 kb on + strand, within PP_1682at 1877.162 kb on + strand, within PP_1682at 1877.163 kb on - strand, within PP_1682at 1877.163 kb on - strand, within PP_1682at 1877.163 kb on - strand, within PP_1682at 1877.163 kb on - strand, within PP_1682at 1877.203 kb on + strand, within PP_1682at 1877.203 kb on + strand, within PP_1682at 1877.203 kb on + strand, within PP_1682at 1877.204 kb on - strand, within PP_1682at 1877.204 kb on - strand, within PP_1682at 1877.204 kb on - strand, within PP_1682at 1877.204 kb on - strand, within PP_1682at 1877.204 kb on - strand, within PP_1682at 1877.204 kb on - strand, within PP_1682at 1877.204 kb on - strand, within PP_1682at 1877.205 kb on + strand, within PP_1682at 1877.206 kb on - strand, within PP_1682at 1877.206 kb on - strand, within PP_1682at 1877.239 kb on + strand, within PP_1682at 1877.240 kb on - strand, within PP_1682at 1877.417 kb on + strandat 1877.418 kb on - strandat 1877.420 kb on - strandat 1877.454 kb on - strandat 1877.493 kb on + strandat 1877.616 kb on - strand, within PP_1683at 1877.659 kb on + strand, within PP_1683at 1877.718 kb on - strand, within PP_1683at 1877.890 kb on - strandat 1877.950 kb on - strandat 1877.971 kb on - strandat 1878.149 kb on + strand, within PP_1684at 1878.150 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction 48hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% DO.
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1,875,193 + PP_1680 0.80 -0.7
1,875,406 + PP_1681 0.17 +2.6
1,875,406 + PP_1681 0.17 +1.6
1,875,407 - PP_1681 0.17 -1.1
1,875,407 - PP_1681 0.17 +1.6
1,875,407 - PP_1681 0.17 +0.1
1,875,464 + PP_1681 0.25 -0.9
1,875,464 + PP_1681 0.25 +0.0
1,875,472 - PP_1681 0.26 -1.1
1,875,515 + PP_1681 0.31 +0.0
1,875,516 - PP_1681 0.32 -0.2
1,875,572 + PP_1681 0.39 -0.5
1,875,572 + PP_1681 0.39 +0.0
1,875,771 + PP_1681 0.65 +0.7
1,875,771 + PP_1681 0.65 -0.7
1,875,771 + PP_1681 0.65 +0.2
1,875,771 + PP_1681 0.65 +0.6
1,875,771 + PP_1681 0.65 -0.9
1,875,771 + PP_1681 0.65 -0.2
1,875,772 - PP_1681 0.65 -1.5
1,875,777 + PP_1681 0.66 +0.0
1,875,778 + PP_1681 0.66 -0.7
1,875,778 + PP_1681 0.66 -0.9
1,875,778 + PP_1681 0.66 +0.1
1,875,778 + PP_1681 0.66 -1.3
1,875,779 - PP_1681 0.66 -0.7
1,875,779 - PP_1681 0.66 -0.5
1,875,779 - PP_1681 0.66 +0.0
1,875,779 - PP_1681 0.66 -0.7
1,875,779 - PP_1681 0.66 -0.4
1,875,819 + PP_1681 0.72 +1.0
1,875,819 + PP_1681 0.72 -0.2
1,875,819 + PP_1681 0.72 -0.2
1,875,819 + PP_1681 0.72 -1.4
1,875,819 + PP_1681 0.72 -0.5
1,875,819 + PP_1681 0.72 -0.3
1,875,819 + PP_1681 0.72 +0.8
1,875,819 + PP_1681 0.72 +1.6
1,875,820 - PP_1681 0.72 -2.1
1,875,820 - PP_1681 0.72 +0.5
1,875,820 - PP_1681 0.72 -1.3
1,875,820 - PP_1681 0.72 -1.3
1,875,820 - PP_1681 0.72 +0.6
1,875,820 - PP_1681 0.72 +1.6
1,876,007 + -1.3
1,876,102 - +0.4
1,876,148 + -0.4
1,876,176 + +0.4
1,876,176 + -1.3
1,876,177 - +0.5
1,876,177 - -1.3
1,876,211 + +0.3
1,876,211 + -0.1
1,876,211 + +0.7
1,876,211 + +0.5
1,876,212 - +1.1
1,876,417 - PP_1682 0.20 -0.4
1,876,420 + PP_1682 0.20 +0.6
1,876,420 + PP_1682 0.20 -0.9
1,876,421 - PP_1682 0.20 +0.6
1,876,421 - PP_1682 0.20 +0.3
1,876,421 - PP_1682 0.20 +0.1
1,876,585 + PP_1682 0.34 +0.6
1,876,618 - PP_1682 0.37 +1.2
1,876,657 + PP_1682 0.40 -1.4
1,876,658 - PP_1682 0.40 +0.1
1,876,738 + PP_1682 0.47 +1.1
1,876,739 - PP_1682 0.47 +0.6
1,876,849 + PP_1682 0.56 -1.0
1,876,850 - PP_1682 0.56 +0.5
1,876,850 - PP_1682 0.56 -0.6
1,876,910 - PP_1682 0.61 +0.7
1,876,910 - PP_1682 0.61 -0.8
1,876,924 + PP_1682 0.62 -0.4
1,876,924 + PP_1682 0.62 -0.9
1,876,924 + PP_1682 0.62 -0.2
1,876,924 + PP_1682 0.62 -0.3
1,876,924 + PP_1682 0.62 +0.8
1,876,924 + PP_1682 0.62 +1.0
1,876,924 + PP_1682 0.62 -0.3
1,876,924 + PP_1682 0.62 -0.1
1,876,924 + PP_1682 0.62 +0.0
1,876,924 + PP_1682 0.62 +0.3
1,876,924 + PP_1682 0.62 +1.3
1,876,924 + PP_1682 0.62 -0.2
1,876,925 - PP_1682 0.63 +1.6
1,876,925 - +2.6
1,876,925 - PP_1682 0.63 -1.2
1,876,925 - PP_1682 0.63 +0.0
1,876,925 - PP_1682 0.63 +0.4
1,877,045 - PP_1682 0.73 +0.4
1,877,149 + PP_1682 0.81 +1.6
1,877,162 + PP_1682 0.83 +1.4
1,877,162 + PP_1682 0.83 +0.7
1,877,162 + PP_1682 0.83 -1.2
1,877,163 - PP_1682 0.83 -0.8
1,877,163 - PP_1682 0.83 -0.1
1,877,163 - PP_1682 0.83 +0.7
1,877,163 - PP_1682 0.83 -0.4
1,877,203 + PP_1682 0.86 +0.2
1,877,203 + PP_1682 0.86 +0.9
1,877,203 + PP_1682 0.86 -0.1
1,877,204 - PP_1682 0.86 +1.2
1,877,204 - PP_1682 0.86 +0.0
1,877,204 - PP_1682 0.86 -0.9
1,877,204 - PP_1682 0.86 +0.3
1,877,204 - PP_1682 0.86 -0.9
1,877,204 - PP_1682 0.86 +0.2
1,877,204 - PP_1682 0.86 +0.3
1,877,205 + PP_1682 0.86 +0.1
1,877,206 - PP_1682 0.86 +0.6
1,877,206 - PP_1682 0.86 +0.3
1,877,239 + PP_1682 0.89 +0.4
1,877,240 - PP_1682 0.89 +0.2
1,877,417 + -2.1
1,877,418 - -1.1
1,877,420 - -0.2
1,877,454 - -0.2
1,877,493 + +4.2
1,877,616 - PP_1683 0.46 +1.5
1,877,659 + PP_1683 0.57 +0.6
1,877,718 - PP_1683 0.71 +0.2
1,877,890 - -1.3
1,877,950 - +0.8
1,877,971 - -0.7
1,878,149 + PP_1684 0.22 +0.3
1,878,150 - +1.6

Or see this region's nucleotide sequence