Strain Fitness in Rahnella sp. WP5 around EX31_RS01900

Experiment: NL-CCM; high oxygen

Add experiment(s):

Zoom: Pan:

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.

download SVG
500 ntEX31_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_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) 413 414Strain fitness (log2 ratio) -2 -1 0 1 2at 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 - strandat 414.386 kb on + strand, within EX31_RS01910at 414.411 kb on - strand, within EX31_RS01910at 414.492 kb on + strand, within EX31_RS01910at 414.492 kb on + strand, within EX31_RS01910at 414.493 kb on - strand, within EX31_RS01910

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction NL-CCM; high oxygen
remove
412,447 - EX31_RS01895 0.64 -0.3
412,447 - EX31_RS01895 0.64 -0.2
412,489 - EX31_RS01895 0.65 -0.6
412,520 + EX31_RS01895 0.67 +0.3
412,520 + EX31_RS01895 0.67 +0.3
412,524 + EX31_RS01895 0.67 +0.5
412,686 + EX31_RS01895 0.73 +0.2
412,687 - EX31_RS01895 0.73 +0.0
412,687 - EX31_RS01895 0.73 -0.1
412,716 + EX31_RS01895 0.74 +1.2
412,766 + EX31_RS01895 0.76 +0.6
412,767 - EX31_RS01895 0.76 -0.9
412,822 - EX31_RS01895 0.79 +0.5
412,823 + EX31_RS01895 0.79 +0.9
412,823 + EX31_RS01895 0.79 +0.3
412,823 + EX31_RS01895 0.79 +0.6
412,823 + EX31_RS01895 0.79 -0.7
412,823 + EX31_RS01895 0.79 +0.2
412,824 - EX31_RS01895 0.79 +0.2
412,824 - EX31_RS01895 0.79 -0.1
412,824 - EX31_RS01895 0.79 -0.9
412,824 - EX31_RS01895 0.79 +0.3
412,833 + EX31_RS01895 0.79 +1.9
412,866 - EX31_RS01895 0.80 -0.3
412,871 + EX31_RS01895 0.80 +0.5
412,871 + EX31_RS01895 0.80 +0.2
412,872 - EX31_RS01895 0.81 +0.6
412,872 - EX31_RS01895 0.81 -0.4
413,028 + EX31_RS01895 0.87 -1.3
413,029 - EX31_RS01895 0.87 -1.2
413,029 - EX31_RS01895 0.87 +0.3
413,044 + EX31_RS01895 0.87 +0.4
413,170 + -0.3
413,171 - -1.4
413,172 + +1.2
413,172 + -1.1
413,190 - +0.3
413,299 - +0.6
413,300 + +0.4
413,301 - -0.2
413,316 + -0.8
413,323 - -0.9
413,331 - +0.7
413,381 + -1.1
413,381 + -1.9
413,382 - -0.6
413,386 + +0.2
413,387 - +0.3
413,387 - +0.4
413,392 + +0.3
413,485 + EX31_RS01900 0.23 -0.6
413,487 + EX31_RS01900 0.24 +0.1
413,488 - EX31_RS01900 0.24 +0.3
413,493 + EX31_RS01900 0.26 +0.5
413,493 + EX31_RS01900 0.26 +0.1
413,493 + EX31_RS01900 0.26 -0.1
413,526 + EX31_RS01900 0.38 +0.6
413,526 + EX31_RS01900 0.38 -0.5
413,527 - EX31_RS01900 0.38 +0.3
413,527 - EX31_RS01900 0.38 +1.1
413,626 - EX31_RS01900 0.73 -0.4
413,679 + -0.2
413,679 + -2.6
413,680 - -2.4
413,787 - EX31_RS01905 0.20 -0.7
413,792 - EX31_RS01905 0.21 -0.7
413,906 + EX31_RS01905 0.48 +1.2
413,907 - EX31_RS01905 0.48 -1.8
413,930 + EX31_RS01905 0.54 -1.6
414,044 + EX31_RS01905 0.80 -1.2
414,044 + EX31_RS01905 0.80 -0.8
414,085 + EX31_RS01905 0.90 +0.1
414,096 + +0.7
414,226 + -0.4
414,226 + +0.4
414,226 + +0.6
414,226 + +0.0
414,227 - +0.2
414,227 - -0.7
414,227 - -0.2
414,260 + -1.0
414,298 - -0.5
414,386 + EX31_RS01910 0.11 +0.8
414,411 - EX31_RS01910 0.12 -0.9
414,492 + EX31_RS01910 0.16 +2.3
414,492 + EX31_RS01910 0.16 -0.4
414,493 - EX31_RS01910 0.16 -0.0

Or see this region's nucleotide sequence