Strain Fitness in Pseudomonas syringae pv. syringae B728a around Psyr_RNA28

Experiment: KB with Avocatin B 10 mM

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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 ntPsyr_1669 and Psyr_1670 overlap by 4 nucleotidesPsyr_1670 and Psyr_RNA28 are separated by 150 nucleotidesPsyr_RNA28 and Psyr_RNA29 are separated by 79 nucleotidesPsyr_RNA29 and Psyr_RNA30 are separated by 115 nucleotidesPsyr_RNA30 and Psyr_1671 are separated by 235 nucleotides Psyr_1669: Psyr_1669 - O-succinylhomoserine sulfhydrylase, at 1,873,984 to 1,875,195 _1669 Psyr_1670: Psyr_1670 - Short-chain dehydrogenase/reductase SDR, at 1,875,192 to 1,876,010 _1670 Psyr_RNA28: Psyr_RNA28 - tRNA-Val, at 1,876,161 to 1,876,236 _RNA28 Psyr_RNA29: Psyr_RNA29 - tRNA-Asp, at 1,876,316 to 1,876,392 _RNA29 Psyr_RNA30: Psyr_RNA30 - tRNA-Asp, at 1,876,508 to 1,876,584 _RNA30 Psyr_1671: Psyr_1671 - lipoprotein, putative, at 1,876,820 to 1,877,644 _1671 Position (kb) 1876 1877Strain fitness (log2 ratio) -2 -1 0 1 2 3at 1875.634 kb on - strand, within Psyr_1670at 1875.712 kb on - strand, within Psyr_1670at 1875.735 kb on - strand, within Psyr_1670at 1875.887 kb on - strand, within Psyr_1670at 1875.999 kb on + strandat 1876.000 kb on - strandat 1876.009 kb on - strandat 1876.037 kb on + strandat 1876.038 kb on - strandat 1876.194 kb on + strand, within Psyr_RNA28at 1876.194 kb on + strand, within Psyr_RNA28at 1876.457 kb on + strandat 1876.497 kb on + strandat 1876.497 kb on + strandat 1876.585 kb on + strandat 1876.585 kb on + strandat 1876.707 kb on + strandat 1876.708 kb on - strandat 1876.728 kb on + strandat 1876.728 kb on + strandat 1876.728 kb on + strandat 1876.728 kb on + strandat 1876.728 kb on + strandat 1876.728 kb on + strandat 1876.728 kb on + strandat 1876.728 kb on + strandat 1876.729 kb on - strandat 1876.729 kb on - strandat 1876.729 kb on - strandat 1876.729 kb on - strandat 1876.762 kb on - strandat 1876.772 kb on - strandat 1876.772 kb on - strandat 1876.825 kb on + strandat 1876.825 kb on + strandat 1876.826 kb on - strandat 1876.830 kb on + strandat 1876.973 kb on + strand, within Psyr_1671at 1876.974 kb on - strand, within Psyr_1671at 1876.974 kb on - strand, within Psyr_1671at 1877.012 kb on + strand, within Psyr_1671at 1877.012 kb on + strand, within Psyr_1671at 1877.012 kb on + strand, within Psyr_1671at 1877.012 kb on + strand, within Psyr_1671at 1877.013 kb on - strand, within Psyr_1671at 1877.013 kb on - strand, within Psyr_1671at 1877.013 kb on - strand, within Psyr_1671at 1877.013 kb on - strand, within Psyr_1671at 1877.014 kb on + strand, within Psyr_1671at 1877.015 kb on - strand, within Psyr_1671at 1877.015 kb on - strand, within Psyr_1671at 1877.015 kb on - strand, within Psyr_1671at 1877.208 kb on + strand, within Psyr_1671at 1877.208 kb on + strand, within Psyr_1671at 1877.209 kb on - strand, within Psyr_1671

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Per-strain Table

Position Strand Gene LocusTag Fraction KB with Avocatin B 10 mM
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1,875,634 - Psyr_1670 0.54 +2.0
1,875,712 - Psyr_1670 0.63 +0.4
1,875,735 - Psyr_1670 0.66 -2.2
1,875,887 - Psyr_1670 0.85 +0.2
1,875,999 + -0.0
1,876,000 - +2.0
1,876,009 - -0.4
1,876,037 + +0.0
1,876,038 - -0.5
1,876,194 + Psyr_RNA28 0.43 -0.9
1,876,194 + Psyr_RNA28 0.43 -2.0
1,876,457 + +2.1
1,876,497 + +1.5
1,876,497 + -0.5
1,876,585 + -0.1
1,876,585 + +0.8
1,876,707 + -1.2
1,876,708 - +3.0
1,876,728 + +3.1
1,876,728 + +0.2
1,876,728 + +0.6
1,876,728 + +0.4
1,876,728 + -0.5
1,876,728 + +3.0
1,876,728 + +1.2
1,876,728 + +0.2
1,876,729 - +0.4
1,876,729 - -0.2
1,876,729 - -0.3
1,876,729 - -0.0
1,876,762 - +2.1
1,876,772 - +3.2
1,876,772 - -0.7
1,876,825 + +0.1
1,876,825 + +0.5
1,876,826 - -0.0
1,876,830 + +1.8
1,876,973 + Psyr_1671 0.19 +0.4
1,876,974 - Psyr_1671 0.19 +0.2
1,876,974 - Psyr_1671 0.19 +1.3
1,877,012 + Psyr_1671 0.23 -1.0
1,877,012 + Psyr_1671 0.23 +0.4
1,877,012 + Psyr_1671 0.23 -0.6
1,877,012 + Psyr_1671 0.23 +0.1
1,877,013 - Psyr_1671 0.23 -2.6
1,877,013 - Psyr_1671 0.23 -0.8
1,877,013 - Psyr_1671 0.23 +0.5
1,877,013 - Psyr_1671 0.23 -1.4
1,877,014 + Psyr_1671 0.24 -0.6
1,877,015 - Psyr_1671 0.24 -0.4
1,877,015 - Psyr_1671 0.24 -1.9
1,877,015 - Psyr_1671 0.24 +2.3
1,877,208 + Psyr_1671 0.47 -0.6
1,877,208 + Psyr_1671 0.47 +2.2
1,877,209 - Psyr_1671 0.47 -1.3

Or see this region's nucleotide sequence