Strain Fitness in Rahnella sp. WP5 around EX31_RS01895

Experiment: NL-CCM; ambient oxygen

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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 ntEX31_RS01885 and EX31_RS01890 are separated by 113 nucleotidesEX31_RS01890 and EX31_RS01895 are separated by 73 nucleotidesEX31_RS01895 and EX31_RS01900 are separated by 51 nucleotidesEX31_RS01900 and EX31_RS01905 overlap by 4 nucleotidesEX31_RS01905 and EX31_RS01910 are separated by 46 nucleotides EX31_RS01885: EX31_RS01885 - type IV secretion protein Rhs, at 409,891 to 410,289 _RS01885 EX31_RS01890: EX31_RS01890 - hypothetical protein, at 410,403 to 410,747 _RS01890 EX31_RS01895: EX31_RS01895 - type VI secretion system tip protein VgrG, at 410,821 to 413,367 _RS01895 EX31_RS01900: EX31_RS01900 - hypothetical protein, at 413,419 to 413,703 _RS01900 EX31_RS01905: EX31_RS01905 - hypothetical protein, at 413,700 to 414,128 _RS01905 EX31_RS01910: EX31_RS01910 - lipase family protein, at 414,175 to 416,124 _RS01910 Position (kb) 410 411 412 413 414Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 409.845 kb on + strandat 409.975 kb on + strand, within EX31_RS01885at 410.114 kb on + strand, within EX31_RS01885at 410.157 kb on - strand, within EX31_RS01885at 410.193 kb on + strand, within EX31_RS01885at 410.257 kb on + strandat 410.328 kb on + strandat 410.358 kb on + strandat 410.882 kb on - strandat 410.972 kb on + strandat 410.983 kb on - strandat 411.030 kb on + strandat 411.030 kb on + strandat 411.188 kb on + strand, within EX31_RS01895at 411.188 kb on + strand, within EX31_RS01895at 411.188 kb on + strand, within EX31_RS01895at 411.188 kb on + strand, within EX31_RS01895at 411.193 kb on - strand, within EX31_RS01895at 411.245 kb on + strand, within EX31_RS01895at 411.246 kb on - strand, within EX31_RS01895at 411.254 kb on + strand, within EX31_RS01895at 411.254 kb on + strand, within EX31_RS01895at 411.432 kb on - strand, within EX31_RS01895at 411.432 kb on - strand, within EX31_RS01895at 411.435 kb on + strand, within EX31_RS01895at 411.435 kb on + strand, within EX31_RS01895at 411.460 kb on + strand, within EX31_RS01895at 411.662 kb on - strand, within EX31_RS01895at 411.673 kb on + strand, within EX31_RS01895at 411.825 kb on - strand, within EX31_RS01895at 411.876 kb on - strand, within EX31_RS01895at 411.927 kb on + strand, within EX31_RS01895at 411.941 kb on + strand, within EX31_RS01895at 411.941 kb on + strand, within EX31_RS01895at 411.941 kb on + strand, within EX31_RS01895at 411.948 kb on + strand, within EX31_RS01895at 412.057 kb on - strand, within EX31_RS01895at 412.057 kb on - strand, within EX31_RS01895at 412.061 kb on - strand, within EX31_RS01895at 412.180 kb on + strand, within EX31_RS01895at 412.180 kb on + strand, within EX31_RS01895at 412.181 kb on - strand, within EX31_RS01895at 412.181 kb on - strand, within EX31_RS01895at 412.181 kb on - strand, within EX31_RS01895at 412.181 kb on - strand, within EX31_RS01895at 412.181 kb on - strand, within EX31_RS01895at 412.185 kb on + strand, within EX31_RS01895at 412.255 kb on + strand, within EX31_RS01895at 412.255 kb on + strand, within EX31_RS01895at 412.255 kb on + strand, within EX31_RS01895at 412.255 kb on + strand, within EX31_RS01895at 412.256 kb on - strand, within EX31_RS01895at 412.256 kb on - strand, within EX31_RS01895at 412.256 kb on - strand, within EX31_RS01895at 412.256 kb on - strand, within EX31_RS01895at 412.258 kb on - strand, within EX31_RS01895at 412.312 kb on - strand, within EX31_RS01895at 412.365 kb on + strand, within EX31_RS01895at 412.365 kb on + strand, within EX31_RS01895at 412.384 kb on - strand, within EX31_RS01895at 412.384 kb on - strand, within EX31_RS01895at 412.387 kb on - strand, within EX31_RS01895at 412.447 kb on - strand, within EX31_RS01895at 412.447 kb on - strand, within EX31_RS01895at 412.489 kb on - strand, within EX31_RS01895at 412.520 kb on + strand, within EX31_RS01895at 412.520 kb on + strand, within EX31_RS01895at 412.524 kb on + strand, within EX31_RS01895at 412.686 kb on + strand, within EX31_RS01895at 412.687 kb on - strand, within EX31_RS01895at 412.687 kb on - strand, within EX31_RS01895at 412.716 kb on + strand, within EX31_RS01895at 412.766 kb on + strand, within EX31_RS01895at 412.767 kb on - strand, within EX31_RS01895at 412.822 kb on - strand, within EX31_RS01895at 412.823 kb on + strand, within EX31_RS01895at 412.823 kb on + strand, within EX31_RS01895at 412.823 kb on + strand, within EX31_RS01895at 412.823 kb on + strand, within EX31_RS01895at 412.823 kb on + strand, within EX31_RS01895at 412.824 kb on - strand, within EX31_RS01895at 412.824 kb on - strand, within EX31_RS01895at 412.824 kb on - strand, within EX31_RS01895at 412.824 kb on - strand, within EX31_RS01895at 412.833 kb on + strand, within EX31_RS01895at 412.866 kb on - strand, within EX31_RS01895at 412.871 kb on + strand, within EX31_RS01895at 412.871 kb on + strand, within EX31_RS01895at 412.872 kb on - strand, within EX31_RS01895at 412.872 kb on - strand, within EX31_RS01895at 413.028 kb on + strand, within EX31_RS01895at 413.029 kb on - strand, within EX31_RS01895at 413.029 kb on - strand, within EX31_RS01895at 413.044 kb on + strand, within EX31_RS01895at 413.170 kb on + strandat 413.171 kb on - strandat 413.172 kb on + strandat 413.172 kb on + strandat 413.190 kb on - strandat 413.299 kb on - strandat 413.300 kb on + strandat 413.301 kb on - strandat 413.316 kb on + strandat 413.323 kb on - strandat 413.331 kb on - strandat 413.381 kb on + strandat 413.381 kb on + strandat 413.382 kb on - strandat 413.386 kb on + strandat 413.387 kb on - strandat 413.387 kb on - strandat 413.392 kb on + strandat 413.485 kb on + strand, within EX31_RS01900at 413.487 kb on + strand, within EX31_RS01900at 413.488 kb on - strand, within EX31_RS01900at 413.493 kb on + strand, within EX31_RS01900at 413.493 kb on + strand, within EX31_RS01900at 413.493 kb on + strand, within EX31_RS01900at 413.526 kb on + strand, within EX31_RS01900at 413.526 kb on + strand, within EX31_RS01900at 413.527 kb on - strand, within EX31_RS01900at 413.527 kb on - strand, within EX31_RS01900at 413.626 kb on - strand, within EX31_RS01900at 413.679 kb on + strandat 413.679 kb on + strandat 413.680 kb on - strandat 413.787 kb on - strand, within EX31_RS01905at 413.792 kb on - strand, within EX31_RS01905at 413.906 kb on + strand, within EX31_RS01905at 413.907 kb on - strand, within EX31_RS01905at 413.930 kb on + strand, within EX31_RS01905at 414.044 kb on + strand, within EX31_RS01905at 414.044 kb on + strand, within EX31_RS01905at 414.085 kb on + strand, within EX31_RS01905at 414.096 kb on + strandat 414.226 kb on + strandat 414.226 kb on + strandat 414.226 kb on + strandat 414.226 kb on + strandat 414.227 kb on - strandat 414.227 kb on - strandat 414.227 kb on - strandat 414.260 kb on + strandat 414.298 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction NL-CCM; ambient oxygen
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409,845 + -0.3
409,975 + EX31_RS01885 0.21 -0.8
410,114 + EX31_RS01885 0.56 -0.4
410,157 - EX31_RS01885 0.67 +0.9
410,193 + EX31_RS01885 0.76 -0.0
410,257 + +0.9
410,328 + -0.1
410,358 + -0.4
410,882 - +0.2
410,972 + -0.1
410,983 - -0.7
411,030 + -0.6
411,030 + -0.4
411,188 + EX31_RS01895 0.14 -0.0
411,188 + EX31_RS01895 0.14 +0.8
411,188 + EX31_RS01895 0.14 -0.3
411,188 + EX31_RS01895 0.14 -0.4
411,193 - EX31_RS01895 0.15 -0.9
411,245 + EX31_RS01895 0.17 -0.0
411,246 - EX31_RS01895 0.17 -0.1
411,254 + EX31_RS01895 0.17 -0.4
411,254 + EX31_RS01895 0.17 -0.3
411,432 - EX31_RS01895 0.24 -0.6
411,432 - EX31_RS01895 0.24 +0.9
411,435 + EX31_RS01895 0.24 +0.2
411,435 + EX31_RS01895 0.24 +1.1
411,460 + EX31_RS01895 0.25 -0.2
411,662 - EX31_RS01895 0.33 -0.4
411,673 + EX31_RS01895 0.33 +0.4
411,825 - EX31_RS01895 0.39 -1.3
411,876 - EX31_RS01895 0.41 -0.7
411,927 + EX31_RS01895 0.43 -0.2
411,941 + EX31_RS01895 0.44 -0.2
411,941 + EX31_RS01895 0.44 +0.6
411,941 + EX31_RS01895 0.44 +0.3
411,948 + EX31_RS01895 0.44 -0.8
412,057 - EX31_RS01895 0.49 -0.2
412,057 - EX31_RS01895 0.49 -1.5
412,061 - EX31_RS01895 0.49 +1.2
412,180 + EX31_RS01895 0.53 -0.8
412,180 + EX31_RS01895 0.53 +1.2
412,181 - EX31_RS01895 0.53 +1.7
412,181 - EX31_RS01895 0.53 +1.2
412,181 - EX31_RS01895 0.53 -0.8
412,181 - EX31_RS01895 0.53 -1.8
412,181 - EX31_RS01895 0.53 -0.2
412,185 + EX31_RS01895 0.54 +1.9
412,255 + EX31_RS01895 0.56 +1.6
412,255 + EX31_RS01895 0.56 -0.5
412,255 + EX31_RS01895 0.56 -1.1
412,255 + EX31_RS01895 0.56 -0.3
412,256 - EX31_RS01895 0.56 +0.2
412,256 - EX31_RS01895 0.56 -0.2
412,256 - EX31_RS01895 0.56 +0.2
412,256 - EX31_RS01895 0.56 -2.1
412,258 - EX31_RS01895 0.56 +0.3
412,312 - EX31_RS01895 0.59 +0.3
412,365 + EX31_RS01895 0.61 -1.0
412,365 + EX31_RS01895 0.61 -0.5
412,384 - EX31_RS01895 0.61 -0.1
412,384 - EX31_RS01895 0.61 +0.6
412,387 - EX31_RS01895 0.61 -0.2
412,447 - EX31_RS01895 0.64 -1.0
412,447 - EX31_RS01895 0.64 -0.9
412,489 - EX31_RS01895 0.65 -2.0
412,520 + EX31_RS01895 0.67 -0.5
412,520 + EX31_RS01895 0.67 -0.6
412,524 + EX31_RS01895 0.67 -1.0
412,686 + EX31_RS01895 0.73 -0.5
412,687 - EX31_RS01895 0.73 +0.0
412,687 - EX31_RS01895 0.73 -2.0
412,716 + EX31_RS01895 0.74 -0.9
412,766 + EX31_RS01895 0.76 -1.0
412,767 - EX31_RS01895 0.76 +0.7
412,822 - EX31_RS01895 0.79 -0.9
412,823 + EX31_RS01895 0.79 -0.0
412,823 + EX31_RS01895 0.79 +1.4
412,823 + EX31_RS01895 0.79 +0.5
412,823 + EX31_RS01895 0.79 -0.3
412,823 + EX31_RS01895 0.79 -0.9
412,824 - EX31_RS01895 0.79 -0.1
412,824 - EX31_RS01895 0.79 +0.4
412,824 - EX31_RS01895 0.79 +0.3
412,824 - EX31_RS01895 0.79 +0.0
412,833 + EX31_RS01895 0.79 +1.3
412,866 - EX31_RS01895 0.80 -1.8
412,871 + EX31_RS01895 0.80 +0.1
412,871 + EX31_RS01895 0.80 -1.1
412,872 - EX31_RS01895 0.81 +0.8
412,872 - EX31_RS01895 0.81 -0.4
413,028 + EX31_RS01895 0.87 -0.6
413,029 - EX31_RS01895 0.87 -0.5
413,029 - EX31_RS01895 0.87 -0.2
413,044 + EX31_RS01895 0.87 -0.1
413,170 + +0.2
413,171 - +0.5
413,172 + -0.1
413,172 + -0.4
413,190 - +0.2
413,299 - +0.2
413,300 + +0.2
413,301 - -0.5
413,316 + -0.7
413,323 - -1.2
413,331 - -0.7
413,381 + -0.9
413,381 + -1.2
413,382 - -1.2
413,386 + +1.2
413,387 - +0.9
413,387 - -0.9
413,392 + +0.6
413,485 + EX31_RS01900 0.23 -2.5
413,487 + EX31_RS01900 0.24 +0.1
413,488 - EX31_RS01900 0.24 -0.2
413,493 + EX31_RS01900 0.26 +0.8
413,493 + EX31_RS01900 0.26 +1.2
413,493 + EX31_RS01900 0.26 +0.3
413,526 + EX31_RS01900 0.38 -0.1
413,526 + EX31_RS01900 0.38 -1.6
413,527 - EX31_RS01900 0.38 -1.0
413,527 - EX31_RS01900 0.38 +0.6
413,626 - EX31_RS01900 0.73 +0.7
413,679 + -0.4
413,679 + -1.5
413,680 - +0.6
413,787 - EX31_RS01905 0.20 -0.0
413,792 - EX31_RS01905 0.21 -0.6
413,906 + EX31_RS01905 0.48 +0.8
413,907 - EX31_RS01905 0.48 +0.1
413,930 + EX31_RS01905 0.54 -0.5
414,044 + EX31_RS01905 0.80 -0.1
414,044 + EX31_RS01905 0.80 -0.1
414,085 + EX31_RS01905 0.90 -0.4
414,096 + -3.0
414,226 + +0.2
414,226 + +0.2
414,226 + -0.8
414,226 + +0.2
414,227 - -0.0
414,227 - -0.6
414,227 - -0.1
414,260 + -1.5
414,298 - +0.1

Or see this region's nucleotide sequence