Experiment: PYE with Polymyxin B sulfate 0.005 mg/ml
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 CCNA_03919 and CCNA_00423 are separated by 233 nucleotides CCNA_00423 and CCNA_00424 are separated by 246 nucleotides CCNA_00424 and CCNA_00425 are separated by 72 nucleotides CCNA_00425 and CCNA_00426 are separated by 450 nucleotides
CCNA_03919: CCNA_03919 - hypothetical protein, at 433,090 to 433,170
_03919
CCNA_00423: CCNA_00423 - phosphohydrolase, MutT-nudix family, at 433,404 to 433,874
_00423
CCNA_00424: CCNA_00424 - aldehyde dehydrogenase, at 434,121 to 435,560
_00424
CCNA_00425: CCNA_00425 - hypothetical protein, at 435,633 to 436,094
_00425
CCNA_00426: CCNA_00426 - very-short-patch-repair endonuclease, at 436,545 to 436,889
_00426
Position (kb) 434
435
436 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3
4
5 at 433.124 kb on - strand, within CCNA_03919 at 433.125 kb on - strand, within CCNA_03919 at 433.136 kb on + strand, within CCNA_03919 at 433.136 kb on + strand, within CCNA_03919 at 433.144 kb on - strand, within CCNA_03919 at 433.144 kb on - strand, within CCNA_03919 at 433.148 kb on - strand, within CCNA_03919 at 433.172 kb on + strand at 433.205 kb on - strand at 433.233 kb on - strand at 433.245 kb on + strand at 433.253 kb on - strand at 433.264 kb on + strand at 433.268 kb on - strand at 433.268 kb on - strand at 433.304 kb on + strand at 433.306 kb on + strand at 433.306 kb on + strand at 433.306 kb on + strand at 433.306 kb on + strand at 433.306 kb on + strand at 433.319 kb on + strand at 433.338 kb on + strand at 433.338 kb on + strand at 433.338 kb on + strand at 433.338 kb on + strand at 433.346 kb on - strand at 433.346 kb on - strand at 433.378 kb on + strand at 433.390 kb on + strand at 433.390 kb on + strand at 433.397 kb on - strand at 433.406 kb on + strand at 433.406 kb on + strand at 433.414 kb on - strand at 433.445 kb on + strand at 433.445 kb on + strand at 433.452 kb on + strand, within CCNA_00423 at 433.453 kb on - strand, within CCNA_00423 at 433.453 kb on - strand, within CCNA_00423 at 433.474 kb on + strand, within CCNA_00423 at 433.474 kb on + strand, within CCNA_00423 at 433.474 kb on + strand, within CCNA_00423 at 433.474 kb on + strand, within CCNA_00423 at 433.474 kb on + strand, within CCNA_00423 at 433.474 kb on + strand, within CCNA_00423 at 433.474 kb on + strand, within CCNA_00423 at 433.482 kb on - strand, within CCNA_00423 at 433.514 kb on + strand, within CCNA_00423 at 433.514 kb on + strand, within CCNA_00423 at 433.522 kb on - strand, within CCNA_00423 at 433.538 kb on + strand, within CCNA_00423 at 433.541 kb on - strand, within CCNA_00423 at 433.546 kb on - strand, within CCNA_00423 at 433.552 kb on - strand, within CCNA_00423 at 433.559 kb on - strand, within CCNA_00423 at 433.560 kb on - strand, within CCNA_00423 at 433.668 kb on + strand, within CCNA_00423 at 433.683 kb on + strand, within CCNA_00423 at 433.696 kb on - strand, within CCNA_00423 at 433.707 kb on + strand, within CCNA_00423 at 433.707 kb on + strand, within CCNA_00423 at 433.741 kb on + strand, within CCNA_00423 at 433.749 kb on - strand, within CCNA_00423 at 433.815 kb on - strand, within CCNA_00423 at 433.839 kb on + strand at 433.844 kb on + strand at 433.846 kb on + strand at 433.851 kb on + strand at 433.851 kb on + strand at 433.855 kb on + strand at 433.859 kb on - strand at 433.863 kb on - strand at 433.870 kb on + strand at 433.873 kb on - strand at 433.875 kb on + strand at 433.878 kb on + strand at 433.899 kb on - strand at 433.915 kb on - strand at 433.925 kb on - strand at 433.926 kb on + strand at 433.949 kb on + strand at 433.949 kb on + strand at 433.949 kb on + strand at 433.949 kb on + strand at 433.949 kb on + strand at 433.949 kb on + strand at 433.957 kb on - strand at 433.957 kb on - strand at 433.957 kb on - strand at 433.957 kb on - strand at 433.957 kb on - strand at 433.957 kb on - strand at 433.965 kb on - strand at 433.965 kb on - strand at 433.965 kb on - strand at 433.996 kb on + strand at 433.997 kb on - strand at 434.033 kb on + strand at 434.041 kb on - strand at 434.041 kb on - strand at 434.041 kb on - strand at 434.060 kb on + strand at 434.105 kb on + strand at 434.105 kb on + strand at 434.105 kb on + strand at 434.105 kb on + strand at 434.105 kb on + strand at 434.113 kb on - strand at 434.113 kb on - strand at 434.113 kb on - strand at 434.128 kb on + strand at 434.138 kb on + strand at 434.146 kb on - strand at 434.206 kb on + strand at 434.213 kb on + strand at 434.213 kb on + strand at 434.247 kb on + strand at 434.258 kb on + strand at 434.260 kb on - strand at 434.282 kb on - strand, within CCNA_00424 at 434.288 kb on - strand, within CCNA_00424 at 434.296 kb on + strand, within CCNA_00424 at 434.303 kb on - strand, within CCNA_00424 at 434.305 kb on + strand, within CCNA_00424 at 434.305 kb on + strand, within CCNA_00424 at 434.305 kb on + strand, within CCNA_00424 at 434.357 kb on - strand, within CCNA_00424 at 434.372 kb on + strand, within CCNA_00424 at 434.372 kb on + strand, within CCNA_00424 at 434.372 kb on + strand, within CCNA_00424 at 434.372 kb on + strand, within CCNA_00424 at 434.372 kb on + strand, within CCNA_00424 at 434.386 kb on - strand, within CCNA_00424 at 434.410 kb on + strand, within CCNA_00424 at 434.410 kb on + strand, within CCNA_00424 at 434.434 kb on + strand, within CCNA_00424 at 434.446 kb on + strand, within CCNA_00424 at 434.451 kb on + strand, within CCNA_00424 at 434.451 kb on + strand, within CCNA_00424 at 434.451 kb on + strand, within CCNA_00424 at 434.454 kb on - strand, within CCNA_00424 at 434.454 kb on - strand, within CCNA_00424 at 434.458 kb on - strand, within CCNA_00424 at 434.459 kb on - strand, within CCNA_00424 at 434.471 kb on + strand, within CCNA_00424 at 434.523 kb on + strand, within CCNA_00424 at 434.549 kb on - strand, within CCNA_00424 at 434.553 kb on + strand, within CCNA_00424 at 434.561 kb on - strand, within CCNA_00424 at 434.622 kb on + strand, within CCNA_00424 at 434.624 kb on + strand, within CCNA_00424 at 434.624 kb on + strand, within CCNA_00424 at 434.624 kb on + strand, within CCNA_00424 at 434.631 kb on + strand, within CCNA_00424 at 434.632 kb on - strand, within CCNA_00424 at 434.691 kb on - strand at 434.713 kb on - strand, within CCNA_00424 at 434.714 kb on + strand, within CCNA_00424 at 434.722 kb on - strand, within CCNA_00424 at 434.795 kb on - strand, within CCNA_00424 at 434.803 kb on + strand, within CCNA_00424 at 434.814 kb on + strand, within CCNA_00424 at 434.847 kb on + strand, within CCNA_00424 at 434.848 kb on + strand, within CCNA_00424 at 434.848 kb on + strand, within CCNA_00424 at 434.853 kb on + strand, within CCNA_00424 at 434.856 kb on - strand, within CCNA_00424 at 434.870 kb on + strand, within CCNA_00424 at 434.871 kb on + strand, within CCNA_00424 at 434.878 kb on - strand, within CCNA_00424 at 434.932 kb on - strand, within CCNA_00424 at 434.941 kb on + strand, within CCNA_00424 at 434.941 kb on + strand, within CCNA_00424 at 434.946 kb on + strand, within CCNA_00424 at 434.949 kb on - strand, within CCNA_00424 at 434.954 kb on - strand, within CCNA_00424 at 434.959 kb on - strand, within CCNA_00424 at 434.974 kb on + strand, within CCNA_00424 at 434.978 kb on + strand, within CCNA_00424 at 434.986 kb on - strand, within CCNA_00424 at 434.986 kb on - strand, within CCNA_00424 at 435.022 kb on - strand, within CCNA_00424 at 435.091 kb on - strand, within CCNA_00424 at 435.098 kb on - strand, within CCNA_00424 at 435.104 kb on + strand, within CCNA_00424 at 435.125 kb on + strand, within CCNA_00424 at 435.127 kb on + strand, within CCNA_00424 at 435.139 kb on + strand, within CCNA_00424 at 435.147 kb on - strand, within CCNA_00424 at 435.152 kb on - strand, within CCNA_00424 at 435.157 kb on - strand, within CCNA_00424 at 435.157 kb on - strand, within CCNA_00424 at 435.170 kb on + strand, within CCNA_00424 at 435.185 kb on - strand, within CCNA_00424 at 435.185 kb on - strand, within CCNA_00424 at 435.185 kb on - strand, within CCNA_00424 at 435.188 kb on + strand, within CCNA_00424 at 435.188 kb on + strand, within CCNA_00424 at 435.196 kb on + strand, within CCNA_00424 at 435.196 kb on + strand, within CCNA_00424 at 435.276 kb on + strand, within CCNA_00424 at 435.276 kb on + strand, within CCNA_00424 at 435.276 kb on + strand, within CCNA_00424 at 435.276 kb on + strand, within CCNA_00424 at 435.294 kb on - strand, within CCNA_00424 at 435.327 kb on + strand, within CCNA_00424 at 435.328 kb on - strand, within CCNA_00424 at 435.336 kb on - strand, within CCNA_00424 at 435.341 kb on + strand, within CCNA_00424 at 435.360 kb on + strand, within CCNA_00424 at 435.372 kb on + strand, within CCNA_00424 at 435.372 kb on + strand, within CCNA_00424 at 435.382 kb on - strand, within CCNA_00424 at 435.410 kb on - strand, within CCNA_00424 at 435.435 kb on - strand at 435.555 kb on + strand at 435.584 kb on + strand at 435.592 kb on - strand at 435.594 kb on + strand at 435.594 kb on + strand at 435.602 kb on - strand at 435.602 kb on - strand at 435.602 kb on - strand at 435.602 kb on - strand at 435.637 kb on - strand at 435.668 kb on - strand at 435.912 kb on + strand, within CCNA_00425 at 435.912 kb on + strand, within CCNA_00425 at 435.912 kb on + strand, within CCNA_00425 at 435.920 kb on - strand, within CCNA_00425 at 435.982 kb on + strand, within CCNA_00425 at 436.035 kb on + strand, within CCNA_00425 at 436.104 kb on + strand at 436.141 kb on + strand at 436.142 kb on - strand at 436.151 kb on + strand at 436.174 kb on - strand at 436.174 kb on - strand at 436.179 kb on - strand at 436.179 kb on - strand at 436.181 kb on + strand at 436.186 kb on + strand at 436.189 kb on - strand at 436.194 kb on - strand at 436.230 kb on + strand at 436.238 kb on - strand at 436.240 kb on + strand at 436.240 kb on + strand at 436.240 kb on + strand at 436.240 kb on + strand at 436.248 kb on - strand at 436.280 kb on + strand at 436.326 kb on + strand at 436.334 kb on - strand at 436.334 kb on - strand at 436.346 kb on - strand at 436.351 kb on + strand at 436.359 kb on - strand at 436.359 kb on - strand at 436.401 kb on + strand at 436.423 kb on + strand at 436.464 kb on + strand at 436.465 kb on - strand at 436.466 kb on - strand at 436.472 kb on - strand at 436.472 kb on - strand at 436.549 kb on - strand
Per-strain Table
Position Strand Gene LocusTag Fraction PYE with Polymyxin B sulfate 0.005 mg/ml remove 433,124 - CCNA_03919 0.42 +3.5 433,125 - CCNA_03919 0.43 -1.0 433,136 + CCNA_03919 0.57 +0.8 433,136 + CCNA_03919 0.57 -1.2 433,144 - CCNA_03919 0.67 +3.4 433,144 - CCNA_03919 0.67 +2.8 433,148 - CCNA_03919 0.72 +1.8 433,172 + -0.6 433,205 - +1.0 433,233 - +0.8 433,245 + +1.8 433,253 - -2.0 433,264 + -1.2 433,268 - -0.4 433,268 - -2.2 433,304 + +0.1 433,306 + -0.2 433,306 + -3.2 433,306 + -0.4 433,306 + -0.8 433,306 + +0.3 433,319 + -1.5 433,338 + -0.9 433,338 + +1.4 433,338 + +0.1 433,338 + -0.5 433,346 - +0.6 433,346 - -0.2 433,378 + -2.0 433,390 + +0.1 433,390 + +0.4 433,397 - +0.4 433,406 + -1.5 433,406 + -0.2 433,414 - -1.1 433,445 + -2.2 433,445 + -1.8 433,452 + CCNA_00423 0.10 +3.4 433,453 - CCNA_00423 0.10 -0.8 433,453 - CCNA_00423 0.10 -1.5 433,474 + CCNA_00423 0.15 -0.6 433,474 + CCNA_00423 0.15 +0.1 433,474 + CCNA_00423 0.15 -0.9 433,474 + CCNA_00423 0.15 -2.5 433,474 + CCNA_00423 0.15 +2.3 433,474 + CCNA_00423 0.15 -1.8 433,474 + CCNA_00423 0.15 +0.2 433,482 - CCNA_00423 0.17 -1.2 433,514 + CCNA_00423 0.23 -2.4 433,514 + CCNA_00423 0.23 +1.7 433,522 - CCNA_00423 0.25 -0.4 433,538 + CCNA_00423 0.28 -0.9 433,541 - CCNA_00423 0.29 +1.4 433,546 - CCNA_00423 0.30 +2.2 433,552 - CCNA_00423 0.31 -1.4 433,559 - CCNA_00423 0.33 +0.4 433,560 - CCNA_00423 0.33 -0.2 433,668 + CCNA_00423 0.56 -0.1 433,683 + CCNA_00423 0.59 +0.4 433,696 - CCNA_00423 0.62 -1.0 433,707 + CCNA_00423 0.64 -1.0 433,707 + CCNA_00423 0.64 -0.0 433,741 + CCNA_00423 0.72 -0.6 433,749 - CCNA_00423 0.73 -1.0 433,815 - CCNA_00423 0.87 -2.1 433,839 + +0.7 433,844 + -1.5 433,846 + +3.4 433,851 + -0.1 433,851 + -0.2 433,855 + -0.5 433,859 - -0.8 433,863 - +1.4 433,870 + -1.0 433,873 - -0.4 433,875 + +1.1 433,878 + -0.8 433,899 - -0.4 433,915 - -0.1 433,925 - -0.8 433,926 + -1.0 433,949 + +0.1 433,949 + -1.0 433,949 + +1.4 433,949 + +1.1 433,949 + +0.1 433,949 + -2.5 433,957 - -2.6 433,957 - -2.9 433,957 - -0.5 433,957 - +0.5 433,957 - -0.9 433,957 - -0.2 433,965 - +2.3 433,965 - +2.4 433,965 - +0.3 433,996 + +1.4 433,997 - -1.8 434,033 + +3.2 434,041 - -0.0 434,041 - +1.3 434,041 - -2.8 434,060 + -0.4 434,105 + +0.9 434,105 + +2.2 434,105 + -0.8 434,105 + -0.8 434,105 + +0.3 434,113 - +2.4 434,113 - +2.4 434,113 - +0.7 434,128 + -1.9 434,138 + -1.6 434,146 - -1.6 434,206 + +0.1 434,213 + -0.3 434,213 + -0.3 434,247 + -0.1 434,258 + +0.6 434,260 - -0.4 434,282 - CCNA_00424 0.11 +0.4 434,288 - CCNA_00424 0.12 -0.9 434,296 + CCNA_00424 0.12 +0.9 434,303 - CCNA_00424 0.13 +0.1 434,305 + CCNA_00424 0.13 -1.0 434,305 + CCNA_00424 0.13 -0.4 434,305 + CCNA_00424 0.13 +1.3 434,357 - CCNA_00424 0.16 +0.4 434,372 + CCNA_00424 0.17 +0.4 434,372 + CCNA_00424 0.17 +0.8 434,372 + CCNA_00424 0.17 -0.8 434,372 + CCNA_00424 0.17 -3.1 434,372 + CCNA_00424 0.17 -0.4 434,386 - CCNA_00424 0.18 -1.8 434,410 + CCNA_00424 0.20 +1.4 434,410 + CCNA_00424 0.20 +0.8 434,434 + CCNA_00424 0.22 -1.1 434,446 + CCNA_00424 0.23 +1.1 434,451 + CCNA_00424 0.23 +2.4 434,451 + CCNA_00424 0.23 +0.0 434,451 + CCNA_00424 0.23 +1.0 434,454 - CCNA_00424 0.23 +0.8 434,454 - CCNA_00424 0.23 -0.6 434,458 - CCNA_00424 0.23 +1.4 434,459 - CCNA_00424 0.23 -0.8 434,471 + CCNA_00424 0.24 -0.4 434,523 + CCNA_00424 0.28 +1.1 434,549 - CCNA_00424 0.30 -1.5 434,553 + CCNA_00424 0.30 +0.4 434,561 - CCNA_00424 0.31 +0.1 434,622 + CCNA_00424 0.35 +0.6 434,624 + CCNA_00424 0.35 -0.6 434,624 + CCNA_00424 0.35 +0.9 434,624 + CCNA_00424 0.35 +1.6 434,631 + CCNA_00424 0.35 +0.5 434,632 - CCNA_00424 0.35 -1.3 434,691 - +1.4 434,713 - CCNA_00424 0.41 +5.7 434,714 + CCNA_00424 0.41 +1.1 434,722 - CCNA_00424 0.42 +1.4 434,795 - CCNA_00424 0.47 +0.1 434,803 + CCNA_00424 0.47 +1.0 434,814 + CCNA_00424 0.48 -0.1 434,847 + CCNA_00424 0.50 +1.3 434,848 + CCNA_00424 0.50 +0.5 434,848 + CCNA_00424 0.50 -1.0 434,853 + CCNA_00424 0.51 +2.2 434,856 - CCNA_00424 0.51 -0.4 434,870 + CCNA_00424 0.52 -0.7 434,871 + CCNA_00424 0.52 +1.1 434,878 - CCNA_00424 0.53 +1.4 434,932 - CCNA_00424 0.56 -0.4 434,941 + CCNA_00424 0.57 -0.9 434,941 + CCNA_00424 0.57 +3.4 434,946 + CCNA_00424 0.57 -0.3 434,949 - CCNA_00424 0.57 +1.6 434,954 - CCNA_00424 0.58 +0.8 434,959 - CCNA_00424 0.58 +1.4 434,974 + CCNA_00424 0.59 +0.0 434,978 + CCNA_00424 0.60 +0.4 434,986 - CCNA_00424 0.60 +0.1 434,986 - CCNA_00424 0.60 +1.4 435,022 - CCNA_00424 0.63 -0.8 435,091 - CCNA_00424 0.67 +2.0 435,098 - CCNA_00424 0.68 -0.8 435,104 + CCNA_00424 0.68 +0.5 435,125 + CCNA_00424 0.70 -0.9 435,127 + CCNA_00424 0.70 +1.5 435,139 + CCNA_00424 0.71 -0.2 435,147 - CCNA_00424 0.71 +0.8 435,152 - CCNA_00424 0.72 +0.1 435,157 - CCNA_00424 0.72 -2.0 435,157 - CCNA_00424 0.72 +2.4 435,170 + CCNA_00424 0.73 -0.8 435,185 - CCNA_00424 0.74 +1.4 435,185 - CCNA_00424 0.74 -1.9 435,185 - CCNA_00424 0.74 +1.3 435,188 + CCNA_00424 0.74 +2.7 435,188 + CCNA_00424 0.74 +3.0 435,196 + CCNA_00424 0.75 +0.8 435,196 + CCNA_00424 0.75 +0.4 435,276 + CCNA_00424 0.80 +0.7 435,276 + CCNA_00424 0.80 -0.2 435,276 + CCNA_00424 0.80 +1.2 435,276 + CCNA_00424 0.80 +2.2 435,294 - CCNA_00424 0.81 +1.4 435,327 + CCNA_00424 0.84 +1.2 435,328 - CCNA_00424 0.84 -0.2 435,336 - CCNA_00424 0.84 -0.6 435,341 + CCNA_00424 0.85 +1.5 435,360 + CCNA_00424 0.86 +1.1 435,372 + CCNA_00424 0.87 +3.3 435,372 + CCNA_00424 0.87 +0.6 435,382 - CCNA_00424 0.88 -1.4 435,410 - CCNA_00424 0.90 +2.4 435,435 - +0.4 435,555 + +2.1 435,584 + +2.4 435,592 - -1.7 435,594 + +2.1 435,594 + +1.8 435,602 - +0.8 435,602 - +2.4 435,602 - +0.1 435,602 - +1.4 435,637 - +1.4 435,668 - -0.2 435,912 + CCNA_00425 0.60 -1.3 435,912 + CCNA_00425 0.60 +0.1 435,912 + CCNA_00425 0.60 -2.0 435,920 - CCNA_00425 0.62 +0.4 435,982 + CCNA_00425 0.76 -3.8 436,035 + CCNA_00425 0.87 -0.9 436,104 + +1.4 436,141 + -1.3 436,142 - -0.6 436,151 + -0.9 436,174 - +0.9 436,174 - -0.7 436,179 - -1.6 436,179 - +1.2 436,181 + -0.9 436,186 + +0.2 436,189 - -0.4 436,194 - +0.8 436,230 + -0.4 436,238 - -0.9 436,240 + +0.0 436,240 + -0.6 436,240 + +0.0 436,240 + +1.7 436,248 - -1.0 436,280 + -0.7 436,326 + -0.0 436,334 - +0.3 436,334 - +0.4 436,346 - -3.0 436,351 + -1.8 436,359 - -0.4 436,359 - -0.0 436,401 + -1.6 436,423 + +1.1 436,464 + +0.4 436,465 - -0.3 436,466 - +0.0 436,472 - +0.7 436,472 - -0.1 436,549 - -0.4
Or see this region's nucleotide sequence