Experiment: NF_with10percent_fullN
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.
500 nt EX31_RS01895 and EX31_RS01900 are separated by 51 nucleotides EX31_RS01900 and EX31_RS01905 overlap by 4 nucleotides EX31_RS01905 and EX31_RS01910 are separated by 46 nucleotides EX31_RS01910 and EX31_RS01915 overlap by 4 nucleotides EX31_RS01915 and EX31_RS01920 are separated by 31 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
EX31_RS01915: EX31_RS01915 - hypothetical protein, at 416,121 to 416,895
_RS01915
EX31_RS01920: EX31_RS01920 - hypothetical protein, at 416,927 to 417,685
_RS01920
Position (kb) 414
415
416
417 Strain fitness (log2 ratio) -3
-2
-1
0
1
2 at 413.190 kb on - strand at 413.299 kb on - strand at 413.300 kb on + strand at 413.301 kb on - strand at 413.316 kb on + strand at 413.323 kb on - strand at 413.331 kb on - strand at 413.381 kb on + strand at 413.381 kb on + strand at 413.382 kb on - strand at 413.386 kb on + strand at 413.387 kb on - strand at 413.387 kb on - strand at 413.392 kb on + strand at 413.485 kb on + strand, within EX31_RS01900 at 413.487 kb on + strand, within EX31_RS01900 at 413.488 kb on - strand, within EX31_RS01900 at 413.493 kb on + strand, within EX31_RS01900 at 413.493 kb on + strand, within EX31_RS01900 at 413.493 kb on + strand, within EX31_RS01900 at 413.526 kb on + strand, within EX31_RS01900 at 413.526 kb on + strand, within EX31_RS01900 at 413.527 kb on - strand, within EX31_RS01900 at 413.527 kb on - strand, within EX31_RS01900 at 413.626 kb on - strand, within EX31_RS01900 at 413.679 kb on + strand at 413.679 kb on + strand at 413.680 kb on - strand at 413.787 kb on - strand, within EX31_RS01905 at 413.792 kb on - strand, within EX31_RS01905 at 413.906 kb on + strand, within EX31_RS01905 at 413.907 kb on - strand, within EX31_RS01905 at 413.930 kb on + strand, within EX31_RS01905 at 414.044 kb on + strand, within EX31_RS01905 at 414.044 kb on + strand, within EX31_RS01905 at 414.085 kb on + strand, within EX31_RS01905 at 414.096 kb on + strand at 414.226 kb on + strand at 414.226 kb on + strand at 414.226 kb on + strand at 414.226 kb on + strand at 414.227 kb on - strand at 414.227 kb on - strand at 414.227 kb on - strand at 414.260 kb on + strand at 414.298 kb on - strand at 414.386 kb on + strand, within EX31_RS01910 at 414.411 kb on - strand, within EX31_RS01910 at 414.492 kb on + strand, within EX31_RS01910 at 414.492 kb on + strand, within EX31_RS01910 at 414.493 kb on - strand, within EX31_RS01910 at 414.796 kb on - strand, within EX31_RS01910 at 414.798 kb on + strand, within EX31_RS01910 at 414.799 kb on - strand, within EX31_RS01910 at 414.817 kb on - strand, within EX31_RS01910 at 414.817 kb on - strand, within EX31_RS01910 at 414.869 kb on + strand, within EX31_RS01910 at 414.883 kb on + strand, within EX31_RS01910 at 414.946 kb on - strand, within EX31_RS01910 at 414.998 kb on + strand, within EX31_RS01910 at 415.000 kb on + strand, within EX31_RS01910 at 415.000 kb on + strand, within EX31_RS01910 at 415.001 kb on - strand, within EX31_RS01910 at 415.001 kb on - strand, within EX31_RS01910 at 415.167 kb on + strand, within EX31_RS01910 at 415.168 kb on - strand, within EX31_RS01910 at 415.172 kb on + strand, within EX31_RS01910 at 415.172 kb on + strand, within EX31_RS01910 at 415.173 kb on - strand, within EX31_RS01910 at 415.221 kb on - strand, within EX31_RS01910 at 415.227 kb on + strand, within EX31_RS01910 at 415.231 kb on + strand, within EX31_RS01910 at 415.231 kb on + strand, within EX31_RS01910 at 415.235 kb on + strand, within EX31_RS01910 at 415.235 kb on + strand, within EX31_RS01910 at 415.235 kb on + strand, within EX31_RS01910 at 415.236 kb on - strand, within EX31_RS01910 at 415.239 kb on + strand, within EX31_RS01910 at 415.240 kb on - strand, within EX31_RS01910 at 415.277 kb on + strand, within EX31_RS01910 at 415.316 kb on - strand, within EX31_RS01910 at 415.365 kb on - strand, within EX31_RS01910 at 415.458 kb on - strand, within EX31_RS01910 at 415.475 kb on + strand, within EX31_RS01910 at 415.481 kb on + strand, within EX31_RS01910 at 415.481 kb on + strand, within EX31_RS01910 at 415.481 kb on + strand, within EX31_RS01910 at 415.509 kb on - strand, within EX31_RS01910 at 415.590 kb on + strand, within EX31_RS01910 at 415.676 kb on + strand, within EX31_RS01910 at 415.677 kb on - strand, within EX31_RS01910 at 415.677 kb on - strand, within EX31_RS01910 at 415.677 kb on - strand, within EX31_RS01910 at 415.855 kb on - strand, within EX31_RS01910 at 416.144 kb on - strand at 416.146 kb on + strand at 416.164 kb on + strand at 416.198 kb on + strand at 416.198 kb on + strand at 416.315 kb on + strand, within EX31_RS01915 at 416.358 kb on + strand, within EX31_RS01915 at 416.358 kb on + strand, within EX31_RS01915 at 416.370 kb on - strand, within EX31_RS01915 at 416.483 kb on + strand, within EX31_RS01915 at 416.556 kb on - strand, within EX31_RS01915 at 416.616 kb on + strand, within EX31_RS01915 at 416.616 kb on + strand, within EX31_RS01915 at 416.617 kb on - strand, within EX31_RS01915 at 416.723 kb on - strand, within EX31_RS01915 at 416.816 kb on + strand, within EX31_RS01915 at 416.847 kb on + strand at 416.983 kb on + strand at 416.999 kb on - strand at 417.092 kb on - strand, within EX31_RS01920
Per-strain Table
Position Strand Gene LocusTag Fraction NF_with10percent_fullN remove 413,190 - +0.6 413,299 - +0.7 413,300 + -0.1 413,301 - -1.9 413,316 + -1.3 413,323 - -0.0 413,331 - +0.8 413,381 + +1.8 413,381 + -2.8 413,382 - -1.9 413,386 + +1.4 413,387 - +0.5 413,387 - -0.0 413,392 + +0.4 413,485 + EX31_RS01900 0.23 -0.6 413,487 + EX31_RS01900 0.24 -0.6 413,488 - EX31_RS01900 0.24 +0.5 413,493 + EX31_RS01900 0.26 -1.1 413,493 + EX31_RS01900 0.26 -0.6 413,493 + EX31_RS01900 0.26 -1.6 413,526 + EX31_RS01900 0.38 -0.9 413,526 + EX31_RS01900 0.38 -0.7 413,527 - EX31_RS01900 0.38 +0.1 413,527 - EX31_RS01900 0.38 -1.0 413,626 - EX31_RS01900 0.73 -0.6 413,679 + -0.2 413,679 + -0.6 413,680 - -0.3 413,787 - EX31_RS01905 0.20 -0.7 413,792 - EX31_RS01905 0.21 -1.1 413,906 + EX31_RS01905 0.48 +1.2 413,907 - EX31_RS01905 0.48 -1.2 413,930 + EX31_RS01905 0.54 -0.6 414,044 + EX31_RS01905 0.80 -0.4 414,044 + EX31_RS01905 0.80 +0.2 414,085 + EX31_RS01905 0.90 +0.1 414,096 + -0.3 414,226 + +0.4 414,226 + +0.3 414,226 + -0.3 414,226 + +0.4 414,227 - -1.9 414,227 - -1.3 414,227 - +0.8 414,260 + -0.8 414,298 - -0.3 414,386 + EX31_RS01910 0.11 +0.6 414,411 - EX31_RS01910 0.12 +0.2 414,492 + EX31_RS01910 0.16 +1.3 414,492 + EX31_RS01910 0.16 -1.0 414,493 - EX31_RS01910 0.16 +0.6 414,796 - EX31_RS01910 0.32 -0.7 414,798 + EX31_RS01910 0.32 -0.6 414,799 - EX31_RS01910 0.32 -1.7 414,817 - EX31_RS01910 0.33 +0.4 414,817 - EX31_RS01910 0.33 +0.5 414,869 + EX31_RS01910 0.36 +0.8 414,883 + EX31_RS01910 0.36 -2.2 414,946 - EX31_RS01910 0.40 -0.2 414,998 + EX31_RS01910 0.42 -1.0 415,000 + EX31_RS01910 0.42 -0.5 415,000 + EX31_RS01910 0.42 -1.6 415,001 - EX31_RS01910 0.42 -0.2 415,001 - EX31_RS01910 0.42 -0.8 415,167 + EX31_RS01910 0.51 -0.9 415,168 - EX31_RS01910 0.51 -2.8 415,172 + EX31_RS01910 0.51 -0.6 415,172 + EX31_RS01910 0.51 -0.8 415,173 - EX31_RS01910 0.51 +2.2 415,221 - EX31_RS01910 0.54 +0.7 415,227 + EX31_RS01910 0.54 +1.1 415,231 + EX31_RS01910 0.54 +0.5 415,231 + EX31_RS01910 0.54 -0.5 415,235 + EX31_RS01910 0.54 -0.1 415,235 + EX31_RS01910 0.54 +0.7 415,235 + EX31_RS01910 0.54 -1.3 415,236 - EX31_RS01910 0.54 -0.7 415,239 + EX31_RS01910 0.55 +0.3 415,240 - EX31_RS01910 0.55 -2.3 415,277 + EX31_RS01910 0.57 +1.0 415,316 - EX31_RS01910 0.59 -1.3 415,365 - EX31_RS01910 0.61 -0.6 415,458 - EX31_RS01910 0.66 -1.5 415,475 + EX31_RS01910 0.67 -0.9 415,481 + EX31_RS01910 0.67 -2.9 415,481 + EX31_RS01910 0.67 -0.3 415,481 + EX31_RS01910 0.67 -1.9 415,509 - EX31_RS01910 0.68 -1.8 415,590 + EX31_RS01910 0.73 -0.7 415,676 + EX31_RS01910 0.77 +0.2 415,677 - EX31_RS01910 0.77 +1.2 415,677 - EX31_RS01910 0.77 -0.4 415,677 - EX31_RS01910 0.77 -0.6 415,855 - EX31_RS01910 0.86 -1.5 416,144 - -2.1 416,146 + +0.0 416,164 + +0.1 416,198 + +0.3 416,198 + -0.4 416,315 + EX31_RS01915 0.25 +0.1 416,358 + EX31_RS01915 0.31 +0.8 416,358 + EX31_RS01915 0.31 -1.5 416,370 - EX31_RS01915 0.32 -0.6 416,483 + EX31_RS01915 0.47 +0.2 416,556 - EX31_RS01915 0.56 -0.3 416,616 + EX31_RS01915 0.64 -0.3 416,616 + EX31_RS01915 0.64 +0.4 416,617 - EX31_RS01915 0.64 -0.3 416,723 - EX31_RS01915 0.78 +0.4 416,816 + EX31_RS01915 0.90 -1.7 416,847 + -1.0 416,983 + -1.9 416,999 - -2.8 417,092 - EX31_RS01920 0.22 -2.0
Or see this region's nucleotide sequence