Experiment: Upstate
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 DDA3937_RS03590 and DDA3937_RS03595 are separated by 96 nucleotides DDA3937_RS03595 and DDA3937_RS03600 are separated by 129 nucleotides DDA3937_RS03600 and DDA3937_RS03605 are separated by 22 nucleotides
DDA3937_RS03590: DDA3937_RS03590 - LysE family transporter, at 792,883 to 793,506
_RS03590
DDA3937_RS03595: DDA3937_RS03595 - YnfC family lipoprotein, at 793,603 to 794,328
_RS03595
DDA3937_RS03600: DDA3937_RS03600 - glycosyl hydrolase 43 family protein, at 794,458 to 796,026
_RS03600
DDA3937_RS03605: DDA3937_RS03605 - MFS transporter, at 796,049 to 797,506
_RS03605
Position (kb) 794
795
796
797 Strain fitness (log2 ratio) -2
-1
0
1
2
3 at 793.486 kb on - strand at 793.492 kb on + strand at 793.492 kb on + strand at 793.493 kb on - strand at 793.535 kb on + strand at 793.535 kb on + strand at 793.535 kb on + strand at 793.535 kb on + strand at 793.535 kb on + strand at 793.535 kb on + strand at 793.536 kb on - strand at 793.541 kb on + strand at 793.603 kb on - strand at 793.603 kb on - strand at 793.603 kb on - strand at 793.611 kb on - strand at 793.637 kb on + strand at 793.637 kb on + strand at 793.637 kb on + strand at 793.640 kb on + strand at 793.640 kb on + strand at 793.641 kb on - strand at 793.750 kb on - strand, within DDA3937_RS03595 at 793.789 kb on + strand, within DDA3937_RS03595 at 793.789 kb on + strand, within DDA3937_RS03595 at 793.789 kb on + strand, within DDA3937_RS03595 at 793.790 kb on - strand, within DDA3937_RS03595 at 793.790 kb on - strand, within DDA3937_RS03595 at 793.790 kb on - strand, within DDA3937_RS03595 at 793.840 kb on + strand, within DDA3937_RS03595 at 793.840 kb on + strand, within DDA3937_RS03595 at 793.840 kb on + strand, within DDA3937_RS03595 at 793.840 kb on + strand, within DDA3937_RS03595 at 793.841 kb on - strand, within DDA3937_RS03595 at 793.841 kb on - strand, within DDA3937_RS03595 at 793.879 kb on - strand, within DDA3937_RS03595 at 793.975 kb on + strand, within DDA3937_RS03595 at 793.993 kb on + strand, within DDA3937_RS03595 at 793.993 kb on + strand, within DDA3937_RS03595 at 793.993 kb on + strand, within DDA3937_RS03595 at 793.993 kb on + strand, within DDA3937_RS03595 at 793.994 kb on - strand, within DDA3937_RS03595 at 794.014 kb on + strand, within DDA3937_RS03595 at 794.045 kb on - strand, within DDA3937_RS03595 at 794.128 kb on - strand, within DDA3937_RS03595 at 794.219 kb on - strand, within DDA3937_RS03595 at 794.255 kb on + strand, within DDA3937_RS03595 at 794.255 kb on + strand, within DDA3937_RS03595 at 794.255 kb on + strand, within DDA3937_RS03595 at 794.304 kb on + strand at 794.304 kb on + strand at 794.304 kb on + strand at 794.304 kb on + strand at 794.305 kb on - strand at 794.305 kb on - strand at 794.305 kb on - strand at 794.320 kb on + strand at 794.321 kb on - strand at 794.323 kb on + strand at 794.324 kb on - strand at 794.324 kb on - strand at 794.324 kb on - strand at 794.324 kb on - strand at 794.327 kb on - strand at 794.358 kb on + strand at 794.358 kb on + strand at 794.359 kb on - strand at 794.363 kb on - strand at 794.528 kb on + strand at 794.528 kb on + strand at 794.528 kb on + strand at 794.705 kb on + strand, within DDA3937_RS03600 at 794.705 kb on + strand, within DDA3937_RS03600 at 794.706 kb on - strand, within DDA3937_RS03600 at 794.706 kb on - strand, within DDA3937_RS03600 at 794.807 kb on + strand, within DDA3937_RS03600 at 794.816 kb on - strand, within DDA3937_RS03600 at 794.918 kb on + strand, within DDA3937_RS03600 at 794.918 kb on + strand, within DDA3937_RS03600 at 794.919 kb on - strand, within DDA3937_RS03600 at 794.919 kb on - strand, within DDA3937_RS03600 at 794.919 kb on - strand, within DDA3937_RS03600 at 794.919 kb on - strand, within DDA3937_RS03600 at 794.919 kb on - strand, within DDA3937_RS03600 at 794.991 kb on - strand, within DDA3937_RS03600 at 795.029 kb on - strand, within DDA3937_RS03600 at 795.029 kb on - strand, within DDA3937_RS03600 at 795.029 kb on - strand, within DDA3937_RS03600 at 795.200 kb on - strand, within DDA3937_RS03600 at 795.407 kb on + strand, within DDA3937_RS03600 at 795.410 kb on + strand, within DDA3937_RS03600 at 795.411 kb on - strand, within DDA3937_RS03600 at 795.411 kb on - strand, within DDA3937_RS03600 at 795.429 kb on - strand, within DDA3937_RS03600 at 795.429 kb on - strand, within DDA3937_RS03600 at 795.532 kb on + strand, within DDA3937_RS03600 at 795.532 kb on + strand, within DDA3937_RS03600 at 795.532 kb on + strand, within DDA3937_RS03600 at 795.533 kb on - strand, within DDA3937_RS03600 at 795.533 kb on - strand, within DDA3937_RS03600 at 795.533 kb on - strand, within DDA3937_RS03600 at 795.533 kb on - strand, within DDA3937_RS03600 at 795.552 kb on + strand, within DDA3937_RS03600 at 795.880 kb on - strand at 795.880 kb on - strand at 795.905 kb on + strand at 795.906 kb on - strand at 795.909 kb on + strand at 795.909 kb on + strand at 795.909 kb on + strand at 795.909 kb on + strand at 795.910 kb on - strand at 795.944 kb on + strand at 796.013 kb on - strand at 796.013 kb on - strand at 796.176 kb on + strand at 796.176 kb on + strand at 796.176 kb on + strand at 796.194 kb on + strand at 796.287 kb on + strand, within DDA3937_RS03605 at 796.287 kb on + strand, within DDA3937_RS03605 at 796.288 kb on - strand, within DDA3937_RS03605 at 796.411 kb on - strand, within DDA3937_RS03605 at 796.452 kb on + strand, within DDA3937_RS03605 at 796.452 kb on + strand, within DDA3937_RS03605 at 796.453 kb on - strand, within DDA3937_RS03605 at 796.453 kb on - strand, within DDA3937_RS03605 at 796.483 kb on - strand, within DDA3937_RS03605 at 796.483 kb on - strand, within DDA3937_RS03605 at 796.651 kb on + strand, within DDA3937_RS03605 at 796.710 kb on + strand, within DDA3937_RS03605 at 796.710 kb on + strand, within DDA3937_RS03605 at 796.711 kb on - strand, within DDA3937_RS03605 at 796.711 kb on - strand, within DDA3937_RS03605 at 796.711 kb on - strand, within DDA3937_RS03605 at 796.711 kb on - strand, within DDA3937_RS03605 at 796.719 kb on + strand, within DDA3937_RS03605 at 796.720 kb on - strand, within DDA3937_RS03605 at 796.720 kb on - strand, within DDA3937_RS03605 at 796.722 kb on + strand, within DDA3937_RS03605 at 796.722 kb on + strand, within DDA3937_RS03605 at 796.722 kb on + strand, within DDA3937_RS03605 at 796.723 kb on - strand, within DDA3937_RS03605 at 796.771 kb on + strand, within DDA3937_RS03605 at 796.771 kb on + strand, within DDA3937_RS03605 at 796.771 kb on + strand, within DDA3937_RS03605
Per-strain Table
Position Strand Gene LocusTag Fraction Upstate remove 793,486 - -0.2 793,492 + -1.0 793,492 + +0.4 793,493 - -0.0 793,535 + +0.2 793,535 + -1.8 793,535 + +0.8 793,535 + +0.1 793,535 + -0.7 793,535 + +0.1 793,536 - -1.3 793,541 + -1.3 793,603 - -0.5 793,603 - +0.2 793,603 - -0.8 793,611 - +0.3 793,637 + +0.1 793,637 + -0.4 793,637 + -1.7 793,640 + -0.2 793,640 + +0.0 793,641 - -0.9 793,750 - DDA3937_RS03595 0.20 -2.2 793,789 + DDA3937_RS03595 0.26 -0.5 793,789 + DDA3937_RS03595 0.26 -0.1 793,789 + DDA3937_RS03595 0.26 -0.1 793,790 - DDA3937_RS03595 0.26 -0.1 793,790 - DDA3937_RS03595 0.26 -1.2 793,790 - DDA3937_RS03595 0.26 -0.6 793,840 + DDA3937_RS03595 0.33 -1.2 793,840 + DDA3937_RS03595 0.33 +0.1 793,840 + DDA3937_RS03595 0.33 +2.7 793,840 + DDA3937_RS03595 0.33 +1.1 793,841 - DDA3937_RS03595 0.33 -2.0 793,841 - DDA3937_RS03595 0.33 -0.8 793,879 - DDA3937_RS03595 0.38 +1.0 793,975 + DDA3937_RS03595 0.51 -0.8 793,993 + DDA3937_RS03595 0.54 -0.8 793,993 + DDA3937_RS03595 0.54 -1.5 793,993 + DDA3937_RS03595 0.54 -1.5 793,993 + DDA3937_RS03595 0.54 +0.5 793,994 - DDA3937_RS03595 0.54 +0.4 794,014 + DDA3937_RS03595 0.57 +1.9 794,045 - DDA3937_RS03595 0.61 +0.9 794,128 - DDA3937_RS03595 0.72 -0.7 794,219 - DDA3937_RS03595 0.85 +0.9 794,255 + DDA3937_RS03595 0.90 +0.9 794,255 + DDA3937_RS03595 0.90 +0.1 794,255 + DDA3937_RS03595 0.90 -1.4 794,304 + +1.5 794,304 + +1.1 794,304 + -1.4 794,304 + +0.2 794,305 - -1.3 794,305 - -1.2 794,305 - -0.7 794,320 + -0.5 794,321 - -0.2 794,323 + +2.3 794,324 - -0.7 794,324 - +0.5 794,324 - +1.1 794,324 - +1.5 794,327 - -2.4 794,358 + +1.0 794,358 + +0.7 794,359 - +0.5 794,363 - +0.4 794,528 + -1.1 794,528 + -1.3 794,528 + -0.6 794,705 + DDA3937_RS03600 0.16 -1.3 794,705 + DDA3937_RS03600 0.16 +0.2 794,706 - DDA3937_RS03600 0.16 +0.9 794,706 - DDA3937_RS03600 0.16 -1.0 794,807 + DDA3937_RS03600 0.22 +0.6 794,816 - DDA3937_RS03600 0.23 -2.5 794,918 + DDA3937_RS03600 0.29 +2.2 794,918 + DDA3937_RS03600 0.29 -1.0 794,919 - DDA3937_RS03600 0.29 +1.2 794,919 - DDA3937_RS03600 0.29 +0.7 794,919 - DDA3937_RS03600 0.29 -0.7 794,919 - DDA3937_RS03600 0.29 +1.4 794,919 - DDA3937_RS03600 0.29 -0.7 794,991 - DDA3937_RS03600 0.34 +3.1 795,029 - DDA3937_RS03600 0.36 +2.4 795,029 - DDA3937_RS03600 0.36 -0.5 795,029 - DDA3937_RS03600 0.36 -0.5 795,200 - DDA3937_RS03600 0.47 -0.4 795,407 + DDA3937_RS03600 0.60 -0.0 795,410 + DDA3937_RS03600 0.61 +0.3 795,411 - DDA3937_RS03600 0.61 -0.7 795,411 - DDA3937_RS03600 0.61 +1.1 795,429 - DDA3937_RS03600 0.62 -1.0 795,429 - DDA3937_RS03600 0.62 -0.2 795,532 + DDA3937_RS03600 0.68 -1.3 795,532 + DDA3937_RS03600 0.68 +0.9 795,532 + DDA3937_RS03600 0.68 -0.4 795,533 - DDA3937_RS03600 0.69 -0.3 795,533 - DDA3937_RS03600 0.69 -0.7 795,533 - DDA3937_RS03600 0.69 -2.4 795,533 - DDA3937_RS03600 0.69 -0.7 795,552 + DDA3937_RS03600 0.70 -0.7 795,880 - +0.2 795,880 - -0.2 795,905 + +0.4 795,906 - -1.5 795,909 + -1.5 795,909 + -1.2 795,909 + +0.1 795,909 + -1.0 795,910 - -0.5 795,944 + -1.6 796,013 - -1.0 796,013 - +1.0 796,176 + -0.8 796,176 + -0.5 796,176 + +0.1 796,194 + -0.5 796,287 + DDA3937_RS03605 0.16 -0.9 796,287 + DDA3937_RS03605 0.16 +2.7 796,288 - DDA3937_RS03605 0.16 -1.3 796,411 - DDA3937_RS03605 0.25 +0.6 796,452 + DDA3937_RS03605 0.28 -0.4 796,452 + DDA3937_RS03605 0.28 -0.0 796,453 - DDA3937_RS03605 0.28 +0.1 796,453 - DDA3937_RS03605 0.28 -0.8 796,483 - DDA3937_RS03605 0.30 -0.4 796,483 - DDA3937_RS03605 0.30 +1.2 796,651 + DDA3937_RS03605 0.41 -1.2 796,710 + DDA3937_RS03605 0.45 +0.3 796,710 + DDA3937_RS03605 0.45 +0.4 796,711 - DDA3937_RS03605 0.45 +0.5 796,711 - DDA3937_RS03605 0.45 +0.2 796,711 - DDA3937_RS03605 0.45 -0.2 796,711 - DDA3937_RS03605 0.45 -0.7 796,719 + DDA3937_RS03605 0.46 +0.7 796,720 - DDA3937_RS03605 0.46 +0.0 796,720 - DDA3937_RS03605 0.46 -1.1 796,722 + DDA3937_RS03605 0.46 +0.8 796,722 + DDA3937_RS03605 0.46 +1.7 796,722 + DDA3937_RS03605 0.46 +0.9 796,723 - DDA3937_RS03605 0.46 -1.5 796,771 + DDA3937_RS03605 0.50 +0.4 796,771 + DDA3937_RS03605 0.50 -0.9 796,771 + DDA3937_RS03605 0.50 -0.5
Or see this region's nucleotide sequence