Strain Fitness in Ralstonia solanacearum GMI1000 around RS_RS19940

Experiment: SMSA no antibiotic control

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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 ntRS_RS19935 and RS_RS19940 are separated by 77 nucleotidesRS_RS19940 and RS_RS26170 are separated by 147 nucleotidesRS_RS26170 and RS_RS26175 overlap by 28 nucleotidesRS_RS26175 and RS_RS19945 are separated by 193 nucleotides RS_RS19935: RS_RS19935 - oxidoreductase, at 723,622 to 724,452 _RS19935 RS_RS19940: RS_RS19940 - AraC family transcriptional regulator, at 724,530 to 725,549 _RS19940 RS_RS26170: RS_RS26170 - hypothetical protein, at 725,697 to 725,918 _RS26170 RS_RS26175: RS_RS26175 - hypothetical protein, at 725,891 to 726,081 _RS26175 RS_RS19945: RS_RS19945 - hypothetical protein, at 726,275 to 726,538 _RS19945 Position (kb) 724 725 726Strain fitness (log2 ratio) -2 -1 0 1at 723.585 kb on + strandat 723.586 kb on - strandat 723.586 kb on - strandat 723.721 kb on + strand, within RS_RS19935at 723.721 kb on + strand, within RS_RS19935at 723.721 kb on + strand, within RS_RS19935at 723.721 kb on + strand, within RS_RS19935at 723.721 kb on + strand, within RS_RS19935at 723.721 kb on + strand, within RS_RS19935at 723.722 kb on - strand, within RS_RS19935at 723.722 kb on - strand, within RS_RS19935at 723.776 kb on + strand, within RS_RS19935at 723.776 kb on + strand, within RS_RS19935at 723.776 kb on + strand, within RS_RS19935at 723.776 kb on + strand, within RS_RS19935at 723.845 kb on + strand, within RS_RS19935at 723.846 kb on - strand, within RS_RS19935at 723.846 kb on - strand, within RS_RS19935at 723.846 kb on - strand, within RS_RS19935at 723.889 kb on + strand, within RS_RS19935at 723.889 kb on + strand, within RS_RS19935at 723.889 kb on + strand, within RS_RS19935at 723.889 kb on + strand, within RS_RS19935at 723.889 kb on + strand, within RS_RS19935at 723.889 kb on + strand, within RS_RS19935at 723.889 kb on + strand, within RS_RS19935at 723.890 kb on - strand, within RS_RS19935at 723.890 kb on - strand, within RS_RS19935at 723.929 kb on - strand, within RS_RS19935at 723.929 kb on - strand, within RS_RS19935at 724.045 kb on + strand, within RS_RS19935at 724.046 kb on - strand, within RS_RS19935at 724.066 kb on + strand, within RS_RS19935at 724.067 kb on - strand, within RS_RS19935at 724.067 kb on - strand, within RS_RS19935at 724.067 kb on - strand, within RS_RS19935at 724.134 kb on + strand, within RS_RS19935at 724.135 kb on - strand, within RS_RS19935at 724.229 kb on - strand, within RS_RS19935at 724.273 kb on + strand, within RS_RS19935at 724.274 kb on - strand, within RS_RS19935at 724.274 kb on - strand, within RS_RS19935at 724.315 kb on - strand, within RS_RS19935at 724.315 kb on - strand, within RS_RS19935at 724.358 kb on - strand, within RS_RS19935at 724.372 kb on + strandat 724.373 kb on - strandat 724.482 kb on + strandat 724.482 kb on + strandat 724.482 kb on + strandat 724.483 kb on - strandat 724.483 kb on - strandat 724.483 kb on - strandat 724.557 kb on - strandat 724.557 kb on - strandat 724.557 kb on - strandat 724.557 kb on - strandat 724.581 kb on - strandat 724.581 kb on - strandat 724.684 kb on - strand, within RS_RS19940at 724.684 kb on - strand, within RS_RS19940at 724.684 kb on - strand, within RS_RS19940at 724.684 kb on - strand, within RS_RS19940at 724.684 kb on - strand, within RS_RS19940at 724.744 kb on + strand, within RS_RS19940at 724.745 kb on - strand, within RS_RS19940at 724.745 kb on - strand, within RS_RS19940at 724.760 kb on + strand, within RS_RS19940at 724.809 kb on + strand, within RS_RS19940at 724.810 kb on - strand, within RS_RS19940at 724.874 kb on + strand, within RS_RS19940at 724.915 kb on + strand, within RS_RS19940at 724.917 kb on + strand, within RS_RS19940at 724.917 kb on + strand, within RS_RS19940at 724.917 kb on + strand, within RS_RS19940at 724.918 kb on - strand, within RS_RS19940at 724.918 kb on - strand, within RS_RS19940at 724.918 kb on - strand, within RS_RS19940at 724.918 kb on - strand, within RS_RS19940at 724.918 kb on - strand, within RS_RS19940at 725.029 kb on + strand, within RS_RS19940at 725.029 kb on + strand, within RS_RS19940at 725.029 kb on + strand, within RS_RS19940at 725.029 kb on + strand, within RS_RS19940at 725.029 kb on + strand, within RS_RS19940at 725.029 kb on + strand, within RS_RS19940at 725.029 kb on + strand, within RS_RS19940at 725.030 kb on - strand, within RS_RS19940at 725.030 kb on - strand, within RS_RS19940at 725.030 kb on - strand, within RS_RS19940at 725.030 kb on - strand, within RS_RS19940at 725.030 kb on - strand, within RS_RS19940at 725.064 kb on + strand, within RS_RS19940at 725.216 kb on + strand, within RS_RS19940at 725.217 kb on - strand, within RS_RS19940at 725.217 kb on - strand, within RS_RS19940at 725.217 kb on - strand, within RS_RS19940at 725.318 kb on + strand, within RS_RS19940at 725.318 kb on + strand, within RS_RS19940at 725.318 kb on + strand, within RS_RS19940at 725.319 kb on - strand, within RS_RS19940at 725.323 kb on + strand, within RS_RS19940at 725.324 kb on - strand, within RS_RS19940at 725.324 kb on - strand, within RS_RS19940at 725.324 kb on - strand, within RS_RS19940at 725.324 kb on - strand, within RS_RS19940at 725.324 kb on - strand, within RS_RS19940at 725.451 kb on + strandat 725.451 kb on + strandat 725.460 kb on - strandat 725.577 kb on + strandat 725.578 kb on - strandat 725.578 kb on - strandat 725.578 kb on - strandat 725.632 kb on + strandat 725.632 kb on + strandat 725.633 kb on - strandat 725.749 kb on + strand, within RS_RS26170at 725.847 kb on - strand, within RS_RS26170at 725.896 kb on + strandat 725.896 kb on + strandat 725.896 kb on + strandat 725.897 kb on - strandat 725.897 kb on - strandat 725.897 kb on - strandat 725.897 kb on - strandat 725.904 kb on + strandat 725.904 kb on + strandat 725.905 kb on - strandat 725.964 kb on - strand, within RS_RS26175at 726.043 kb on + strand, within RS_RS26175at 726.044 kb on - strand, within RS_RS26175at 726.057 kb on + strand, within RS_RS26175at 726.057 kb on + strand, within RS_RS26175at 726.058 kb on - strand, within RS_RS26175at 726.071 kb on + strandat 726.174 kb on - strandat 726.225 kb on + strandat 726.244 kb on + strandat 726.268 kb on + strandat 726.275 kb on - strandat 726.275 kb on - strandat 726.349 kb on + strand, within RS_RS19945at 726.350 kb on - strand, within RS_RS19945at 726.389 kb on + strand, within RS_RS19945at 726.389 kb on + strand, within RS_RS19945at 726.390 kb on - strand, within RS_RS19945at 726.390 kb on - strand, within RS_RS19945at 726.390 kb on - strand, within RS_RS19945at 726.401 kb on + strand, within RS_RS19945at 726.401 kb on + strand, within RS_RS19945at 726.401 kb on + strand, within RS_RS19945at 726.439 kb on - strand, within RS_RS19945at 726.508 kb on + strand, within RS_RS19945at 726.508 kb on + strand, within RS_RS19945at 726.508 kb on + strand, within RS_RS19945at 726.508 kb on + strand, within RS_RS19945at 726.509 kb on - strand, within RS_RS19945at 726.509 kb on - strand, within RS_RS19945at 726.509 kb on - strand, within RS_RS19945at 726.509 kb on - strand, within RS_RS19945

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Per-strain Table

Position Strand Gene LocusTag Fraction SMSA no antibiotic control
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723,585 + -0.1
723,586 - +0.3
723,586 - +1.0
723,721 + RS_RS19935 0.12 +0.2
723,721 + RS_RS19935 0.12 +0.3
723,721 + RS_RS19935 0.12 -1.1
723,721 + RS_RS19935 0.12 -0.7
723,721 + RS_RS19935 0.12 -0.2
723,721 + RS_RS19935 0.12 +0.3
723,722 - RS_RS19935 0.12 +0.1
723,722 - RS_RS19935 0.12 +0.1
723,776 + RS_RS19935 0.19 +0.0
723,776 + RS_RS19935 0.19 +0.0
723,776 + RS_RS19935 0.19 +0.2
723,776 + RS_RS19935 0.19 +0.1
723,845 + RS_RS19935 0.27 -0.5
723,846 - RS_RS19935 0.27 -0.1
723,846 - RS_RS19935 0.27 -0.9
723,846 - RS_RS19935 0.27 -0.4
723,889 + RS_RS19935 0.32 +0.0
723,889 + RS_RS19935 0.32 +0.2
723,889 + RS_RS19935 0.32 +0.0
723,889 + RS_RS19935 0.32 +0.2
723,889 + RS_RS19935 0.32 +0.2
723,889 + RS_RS19935 0.32 -0.3
723,889 + RS_RS19935 0.32 -1.8
723,890 - RS_RS19935 0.32 +0.2
723,890 - RS_RS19935 0.32 +0.3
723,929 - RS_RS19935 0.37 -0.9
723,929 - RS_RS19935 0.37 -0.3
724,045 + RS_RS19935 0.51 -0.4
724,046 - RS_RS19935 0.51 -0.2
724,066 + RS_RS19935 0.53 -0.1
724,067 - RS_RS19935 0.54 +0.0
724,067 - RS_RS19935 0.54 -0.1
724,067 - RS_RS19935 0.54 -0.3
724,134 + RS_RS19935 0.62 -0.1
724,135 - RS_RS19935 0.62 +0.1
724,229 - RS_RS19935 0.73 +0.4
724,273 + RS_RS19935 0.78 -0.0
724,274 - RS_RS19935 0.78 -0.1
724,274 - RS_RS19935 0.78 -0.5
724,315 - RS_RS19935 0.83 -0.0
724,315 - RS_RS19935 0.83 +0.5
724,358 - RS_RS19935 0.89 +0.0
724,372 + -0.1
724,373 - -0.9
724,482 + -0.9
724,482 + -0.4
724,482 + -0.4
724,483 - +0.3
724,483 - +0.1
724,483 - +0.8
724,557 - +1.1
724,557 - -0.1
724,557 - -0.2
724,557 - +0.2
724,581 - +1.1
724,581 - -1.3
724,684 - RS_RS19940 0.15 +0.5
724,684 - RS_RS19940 0.15 -0.1
724,684 - RS_RS19940 0.15 +0.1
724,684 - RS_RS19940 0.15 -0.0
724,684 - RS_RS19940 0.15 -0.7
724,744 + RS_RS19940 0.21 -0.1
724,745 - RS_RS19940 0.21 -0.0
724,745 - RS_RS19940 0.21 -0.3
724,760 + RS_RS19940 0.23 +0.1
724,809 + RS_RS19940 0.27 -0.2
724,810 - RS_RS19940 0.27 +0.1
724,874 + RS_RS19940 0.34 -0.3
724,915 + RS_RS19940 0.38 +0.3
724,917 + RS_RS19940 0.38 -2.1
724,917 + RS_RS19940 0.38 -0.1
724,917 + RS_RS19940 0.38 -0.4
724,918 - RS_RS19940 0.38 -0.1
724,918 - RS_RS19940 0.38 -1.4
724,918 - RS_RS19940 0.38 -0.2
724,918 - RS_RS19940 0.38 +0.5
724,918 - RS_RS19940 0.38 +0.2
725,029 + RS_RS19940 0.49 +0.7
725,029 + RS_RS19940 0.49 -0.1
725,029 + RS_RS19940 0.49 -0.6
725,029 + RS_RS19940 0.49 -0.4
725,029 + RS_RS19940 0.49 +0.8
725,029 + RS_RS19940 0.49 -0.6
725,029 + RS_RS19940 0.49 -0.2
725,030 - RS_RS19940 0.49 +0.2
725,030 - RS_RS19940 0.49 -0.0
725,030 - RS_RS19940 0.49 +0.7
725,030 - RS_RS19940 0.49 +0.1
725,030 - RS_RS19940 0.49 -0.0
725,064 + RS_RS19940 0.52 +0.3
725,216 + RS_RS19940 0.67 +1.1
725,217 - RS_RS19940 0.67 +0.0
725,217 - RS_RS19940 0.67 +0.5
725,217 - RS_RS19940 0.67 -0.2
725,318 + RS_RS19940 0.77 +0.7
725,318 + RS_RS19940 0.77 -0.1
725,318 + RS_RS19940 0.77 +1.6
725,319 - RS_RS19940 0.77 +1.1
725,323 + RS_RS19940 0.78 +0.1
725,324 - RS_RS19940 0.78 -0.0
725,324 - RS_RS19940 0.78 -0.2
725,324 - RS_RS19940 0.78 -0.9
725,324 - RS_RS19940 0.78 +1.5
725,324 - RS_RS19940 0.78 -0.2
725,451 + +0.6
725,451 + -0.1
725,460 - +0.1
725,577 + -0.1
725,578 - +0.4
725,578 - +0.2
725,578 - +0.2
725,632 + +0.2
725,632 + +0.7
725,633 - -0.3
725,749 + RS_RS26170 0.23 +0.1
725,847 - RS_RS26170 0.68 +0.4
725,896 + +0.1
725,896 + -0.2
725,896 + +0.6
725,897 - -0.9
725,897 - -0.0
725,897 - -1.4
725,897 - +0.3
725,904 + -0.4
725,904 + +0.3
725,905 - +0.4
725,964 - RS_RS26175 0.38 -0.0
726,043 + RS_RS26175 0.80 -0.3
726,044 - RS_RS26175 0.80 +0.5
726,057 + RS_RS26175 0.87 +0.2
726,057 + RS_RS26175 0.87 -0.1
726,058 - RS_RS26175 0.87 -0.8
726,071 + +1.1
726,174 - +0.3
726,225 + +0.0
726,244 + -0.3
726,268 + -0.3
726,275 - +1.0
726,275 - +0.1
726,349 + RS_RS19945 0.28 +0.3
726,350 - RS_RS19945 0.28 -1.0
726,389 + RS_RS19945 0.43 +0.0
726,389 + RS_RS19945 0.43 +0.6
726,390 - RS_RS19945 0.44 +0.1
726,390 - RS_RS19945 0.44 -0.4
726,390 - RS_RS19945 0.44 +0.8
726,401 + RS_RS19945 0.48 -0.1
726,401 + RS_RS19945 0.48 -0.6
726,401 + RS_RS19945 0.48 -0.5
726,439 - RS_RS19945 0.62 +0.1
726,508 + RS_RS19945 0.88 +0.1
726,508 + RS_RS19945 0.88 -0.8
726,508 + RS_RS19945 0.88 -0.2
726,508 + RS_RS19945 0.88 +0.0
726,509 - RS_RS19945 0.89 -0.3
726,509 - RS_RS19945 0.89 +0.4
726,509 - RS_RS19945 0.89 +0.2
726,509 - RS_RS19945 0.89 +0.1

Or see this region's nucleotide sequence