Strain Fitness in Pseudomonas syringae pv. syringae B728a around Psyr_1671

Experiment: KB with Berberine 250 ug/ml

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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_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 nucleotidesPsyr_1671 and Psyr_1672 are separated by 346 nucleotides 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 Psyr_1672: Psyr_1672 - L-threonine ammonia-lyase, at 1,877,991 to 1,879,526 _1672 Position (kb) 1876 1877 1878Strain fitness (log2 ratio) -2 -1 0 1 2at 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_1671at 1877.605 kb on + strandat 1877.606 kb on - strandat 1877.642 kb on + strandat 1877.643 kb on - strandat 1877.643 kb on - strandat 1877.980 kb on + strandat 1878.640 kb on + strand, within Psyr_1672at 1878.640 kb on + strand, within Psyr_1672at 1878.640 kb on + strand, within Psyr_1672at 1878.640 kb on + strand, within Psyr_1672at 1878.641 kb on - strand, within Psyr_1672at 1878.641 kb on - strand, within Psyr_1672at 1878.641 kb on - strand, within Psyr_1672

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Per-strain Table

Position Strand Gene LocusTag Fraction KB with Berberine 250 ug/ml
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1,875,887 - Psyr_1670 0.85 -0.2
1,875,999 + -0.1
1,876,000 - +0.9
1,876,009 - +0.8
1,876,037 + -0.4
1,876,038 - -0.3
1,876,194 + Psyr_RNA28 0.43 -0.8
1,876,194 + Psyr_RNA28 0.43 +0.9
1,876,457 + +0.8
1,876,497 + +0.1
1,876,497 + +1.2
1,876,585 + +0.9
1,876,585 + +2.5
1,876,707 + -0.2
1,876,708 - -0.9
1,876,728 + +0.5
1,876,728 + +0.3
1,876,728 + +0.2
1,876,728 + +0.3
1,876,728 + +0.2
1,876,728 + -0.1
1,876,728 + +0.1
1,876,728 + -1.9
1,876,729 - -0.4
1,876,729 - -0.7
1,876,729 - +0.6
1,876,729 - -2.4
1,876,762 - +0.7
1,876,772 - +0.6
1,876,772 - -0.1
1,876,825 + -0.3
1,876,825 + -0.8
1,876,826 - +0.8
1,876,830 + +0.6
1,876,973 + Psyr_1671 0.19 +0.1
1,876,974 - Psyr_1671 0.19 +0.2
1,876,974 - Psyr_1671 0.19 +0.6
1,877,012 + Psyr_1671 0.23 -0.1
1,877,012 + Psyr_1671 0.23 -0.3
1,877,012 + Psyr_1671 0.23 -0.5
1,877,012 + Psyr_1671 0.23 -1.4
1,877,013 - Psyr_1671 0.23 +1.9
1,877,013 - Psyr_1671 0.23 -0.3
1,877,013 - Psyr_1671 0.23 -0.5
1,877,013 - Psyr_1671 0.23 -1.7
1,877,014 + Psyr_1671 0.24 +1.1
1,877,015 - Psyr_1671 0.24 -0.6
1,877,015 - Psyr_1671 0.24 -0.3
1,877,015 - Psyr_1671 0.24 -0.7
1,877,208 + Psyr_1671 0.47 -1.1
1,877,208 + Psyr_1671 0.47 -0.2
1,877,209 - Psyr_1671 0.47 -1.2
1,877,605 + -0.1
1,877,606 - +1.0
1,877,642 + +1.1
1,877,643 - +0.6
1,877,643 - -0.3
1,877,980 + +0.7
1,878,640 + Psyr_1672 0.42 -0.8
1,878,640 + Psyr_1672 0.42 -1.7
1,878,640 + Psyr_1672 0.42 -0.7
1,878,640 + Psyr_1672 0.42 -1.4
1,878,641 - Psyr_1672 0.42 -1.5
1,878,641 - Psyr_1672 0.42 +0.4
1,878,641 - Psyr_1672 0.42 +0.2

Or see this region's nucleotide sequence