Experiment: PYE with Doxycycline hyclate 0.0001 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_00743 and CCNA_00744 are separated by 241 nucleotides CCNA_00744 and CCNA_00745 are separated by 33 nucleotides CCNA_00745 and CCNA_03935 overlap by 693 nucleotides CCNA_03935 and CCNA_00746 are separated by 251 nucleotides CCNA_00746 and CCNA_00747 are separated by 98 nucleotides
CCNA_00743: CCNA_00743 - NnrU family membrane protein, at 800,944 to 801,510
_00743
CCNA_00744: CCNA_00744 - GIY-YIG endonuclease domain protein, at 801,752 to 802,036
_00744
CCNA_00745: CCNA_00745 - hypothetical protein, at 802,070 to 802,774
_00745
CCNA_03935: CCNA_03935 - hypothetical protein, at 802,082 to 802,519
_03935
CCNA_00746: CCNA_00746 - ADA regulatory protein/O6-methylguanine-DNA, at 802,771 to 803,496
_00746
CCNA_00747: CCNA_00747 - cyclic-di-GMP phosphodiesterase, flagellum assembly factor TipF, at 803,595 to 804,953
_00747
Position (kb) 802
803 Strain fitness (log2 ratio) -2
-1
0
1
2
3
4 at 801.091 kb on - strand, within CCNA_00743 at 801.130 kb on + strand, within CCNA_00743 at 801.135 kb on + strand, within CCNA_00743 at 801.135 kb on + strand, within CCNA_00743 at 801.177 kb on - strand, within CCNA_00743 at 801.185 kb on + strand, within CCNA_00743 at 801.199 kb on + strand, within CCNA_00743 at 801.199 kb on + strand, within CCNA_00743 at 801.199 kb on + strand, within CCNA_00743 at 801.207 kb on - strand, within CCNA_00743 at 801.207 kb on - strand, within CCNA_00743 at 801.222 kb on + strand, within CCNA_00743 at 801.231 kb on + strand, within CCNA_00743 at 801.231 kb on + strand, within CCNA_00743 at 801.231 kb on + strand, within CCNA_00743 at 801.231 kb on + strand, within CCNA_00743 at 801.231 kb on + strand, within CCNA_00743 at 801.239 kb on - strand, within CCNA_00743 at 801.239 kb on - strand, within CCNA_00743 at 801.239 kb on - strand, within CCNA_00743 at 801.239 kb on - strand, within CCNA_00743 at 801.239 kb on - strand, within CCNA_00743 at 801.244 kb on - strand, within CCNA_00743 at 801.266 kb on + strand, within CCNA_00743 at 801.274 kb on - strand, within CCNA_00743 at 801.291 kb on + strand, within CCNA_00743 at 801.305 kb on - strand, within CCNA_00743 at 801.320 kb on - strand, within CCNA_00743 at 801.322 kb on - strand, within CCNA_00743 at 801.337 kb on + strand, within CCNA_00743 at 801.342 kb on + strand, within CCNA_00743 at 801.342 kb on + strand, within CCNA_00743 at 801.345 kb on - strand, within CCNA_00743 at 801.345 kb on - strand, within CCNA_00743 at 801.392 kb on + strand, within CCNA_00743 at 801.401 kb on + strand, within CCNA_00743 at 801.402 kb on + strand, within CCNA_00743 at 801.402 kb on + strand, within CCNA_00743 at 801.410 kb on - strand, within CCNA_00743 at 801.418 kb on + strand, within CCNA_00743 at 801.418 kb on + strand, within CCNA_00743 at 801.418 kb on + strand, within CCNA_00743 at 801.435 kb on + strand, within CCNA_00743 at 801.438 kb on - strand, within CCNA_00743 at 801.443 kb on - strand, within CCNA_00743 at 801.469 kb on + strand at 801.483 kb on + strand at 801.506 kb on + strand at 801.556 kb on + strand at 801.564 kb on + strand at 801.564 kb on + strand at 801.572 kb on - strand at 801.572 kb on - strand at 801.596 kb on + strand at 801.596 kb on + strand at 801.596 kb on + strand at 801.604 kb on - strand at 801.604 kb on - strand at 801.604 kb on - strand at 801.623 kb on - strand at 801.628 kb on - strand at 801.628 kb on - strand at 801.628 kb on - strand at 801.643 kb on + strand at 801.666 kb on + strand at 801.669 kb on - strand at 801.674 kb on - strand at 801.764 kb on + strand at 801.764 kb on + strand at 801.777 kb on - strand at 801.797 kb on + strand, within CCNA_00744 at 801.801 kb on + strand, within CCNA_00744 at 801.801 kb on + strand, within CCNA_00744 at 801.809 kb on - strand, within CCNA_00744 at 801.812 kb on + strand, within CCNA_00744 at 801.842 kb on + strand, within CCNA_00744 at 801.842 kb on - strand, within CCNA_00744 at 801.862 kb on - strand, within CCNA_00744 at 801.867 kb on - strand, within CCNA_00744 at 801.892 kb on + strand, within CCNA_00744 at 801.892 kb on + strand, within CCNA_00744 at 801.892 kb on + strand, within CCNA_00744 at 801.939 kb on - strand, within CCNA_00744 at 801.945 kb on + strand, within CCNA_00744 at 801.965 kb on - strand, within CCNA_00744 at 801.989 kb on - strand, within CCNA_00744 at 801.989 kb on - strand, within CCNA_00744 at 802.047 kb on - strand at 802.054 kb on - strand at 802.061 kb on + strand at 802.061 kb on + strand at 802.061 kb on + strand at 802.061 kb on + strand at 802.064 kb on - strand at 802.069 kb on - strand at 802.069 kb on - strand at 802.069 kb on - strand at 802.069 kb on - strand at 802.069 kb on - strand at 802.069 kb on - strand at 802.070 kb on + strand at 802.080 kb on - strand at 802.093 kb on + strand at 802.101 kb on - strand at 802.132 kb on + strand at 802.140 kb on - strand at 802.184 kb on + strand at 802.192 kb on - strand at 802.192 kb on - strand at 802.199 kb on + strand at 802.207 kb on - strand at 802.214 kb on - strand at 802.269 kb on - strand at 802.302 kb on + strand at 802.310 kb on - strand at 802.330 kb on + strand at 802.370 kb on + strand at 802.393 kb on - strand at 802.399 kb on - strand at 802.400 kb on + strand at 802.415 kb on + strand at 802.423 kb on - strand at 802.423 kb on - strand at 802.423 kb on - strand at 802.438 kb on + strand at 802.446 kb on + strand at 802.494 kb on + strand at 802.502 kb on - strand at 802.502 kb on - strand at 802.519 kb on - strand at 802.534 kb on - strand, within CCNA_00745 at 802.571 kb on + strand, within CCNA_00745 at 802.578 kb on + strand, within CCNA_00745 at 802.580 kb on - strand, within CCNA_00745 at 802.586 kb on - strand, within CCNA_00745 at 802.594 kb on + strand, within CCNA_00745 at 802.594 kb on + strand, within CCNA_00745 at 802.602 kb on - strand, within CCNA_00745 at 802.618 kb on - strand, within CCNA_00745 at 802.658 kb on + strand, within CCNA_00745 at 802.680 kb on + strand, within CCNA_00745 at 802.685 kb on + strand, within CCNA_00745 at 802.693 kb on - strand, within CCNA_00745 at 802.705 kb on - strand at 802.705 kb on - strand at 802.705 kb on - strand at 802.739 kb on + strand at 802.739 kb on + strand at 802.745 kb on + strand at 802.745 kb on + strand at 802.856 kb on - strand, within CCNA_00746 at 802.865 kb on + strand, within CCNA_00746 at 802.873 kb on - strand, within CCNA_00746 at 802.884 kb on + strand, within CCNA_00746 at 802.897 kb on + strand, within CCNA_00746 at 802.906 kb on - strand, within CCNA_00746 at 802.919 kb on + strand, within CCNA_00746 at 802.919 kb on + strand at 802.919 kb on + strand, within CCNA_00746 at 802.927 kb on - strand, within CCNA_00746 at 802.927 kb on - strand, within CCNA_00746 at 802.927 kb on - strand, within CCNA_00746 at 802.927 kb on - strand, within CCNA_00746 at 802.932 kb on - strand, within CCNA_00746 at 802.950 kb on + strand, within CCNA_00746 at 802.952 kb on + strand at 802.992 kb on - strand, within CCNA_00746 at 803.003 kb on + strand, within CCNA_00746 at 803.003 kb on + strand, within CCNA_00746 at 803.003 kb on + strand, within CCNA_00746 at 803.003 kb on + strand, within CCNA_00746 at 803.011 kb on - strand, within CCNA_00746 at 803.011 kb on - strand, within CCNA_00746 at 803.011 kb on - strand, within CCNA_00746 at 803.020 kb on + strand, within CCNA_00746 at 803.028 kb on - strand, within CCNA_00746 at 803.028 kb on - strand, within CCNA_00746 at 803.041 kb on + strand, within CCNA_00746 at 803.052 kb on + strand, within CCNA_00746 at 803.052 kb on + strand, within CCNA_00746 at 803.060 kb on - strand, within CCNA_00746 at 803.060 kb on - strand, within CCNA_00746 at 803.108 kb on - strand, within CCNA_00746 at 803.130 kb on + strand, within CCNA_00746 at 803.151 kb on - strand, within CCNA_00746 at 803.161 kb on + strand, within CCNA_00746 at 803.181 kb on + strand, within CCNA_00746 at 803.184 kb on - strand, within CCNA_00746 at 803.226 kb on + strand, within CCNA_00746 at 803.226 kb on + strand, within CCNA_00746 at 803.226 kb on + strand, within CCNA_00746 at 803.226 kb on + strand, within CCNA_00746 at 803.226 kb on + strand, within CCNA_00746 at 803.234 kb on - strand, within CCNA_00746 at 803.234 kb on - strand, within CCNA_00746 at 803.234 kb on - strand, within CCNA_00746 at 803.234 kb on - strand at 803.236 kb on + strand, within CCNA_00746 at 803.244 kb on - strand, within CCNA_00746 at 803.244 kb on - strand, within CCNA_00746 at 803.254 kb on + strand, within CCNA_00746 at 803.262 kb on - strand, within CCNA_00746 at 803.262 kb on - strand, within CCNA_00746 at 803.273 kb on + strand, within CCNA_00746 at 803.287 kb on - strand, within CCNA_00746 at 803.287 kb on - strand, within CCNA_00746 at 803.289 kb on + strand, within CCNA_00746 at 803.295 kb on - strand, within CCNA_00746 at 803.295 kb on - strand, within CCNA_00746 at 803.312 kb on + strand, within CCNA_00746 at 803.375 kb on - strand, within CCNA_00746 at 803.386 kb on + strand, within CCNA_00746 at 803.394 kb on - strand, within CCNA_00746 at 803.410 kb on + strand, within CCNA_00746 at 803.432 kb on + strand at 803.440 kb on - strand at 803.440 kb on - strand at 803.482 kb on + strand at 803.482 kb on + strand at 803.482 kb on + strand at 803.482 kb on + strand at 803.490 kb on - strand at 803.490 kb on - strand at 803.490 kb on - strand at 803.521 kb on + strand at 803.549 kb on + strand at 803.570 kb on + strand at 803.578 kb on - strand at 803.591 kb on + strand at 803.599 kb on - strand at 803.603 kb on - strand at 803.658 kb on + strand at 803.658 kb on + strand at 803.661 kb on - strand at 803.661 kb on - strand at 803.666 kb on - strand at 803.703 kb on + strand at 803.717 kb on - strand
Per-strain Table
Position Strand Gene LocusTag Fraction PYE with Doxycycline hyclate 0.0001 mg/ml remove 801,091 - CCNA_00743 0.26 -0.5 801,130 + CCNA_00743 0.33 +1.0 801,135 + CCNA_00743 0.34 +0.8 801,135 + CCNA_00743 0.34 +1.0 801,177 - CCNA_00743 0.41 +0.6 801,185 + CCNA_00743 0.43 +0.6 801,199 + CCNA_00743 0.45 +0.4 801,199 + CCNA_00743 0.45 -0.0 801,199 + CCNA_00743 0.45 -1.0 801,207 - CCNA_00743 0.46 -0.8 801,207 - CCNA_00743 0.46 -0.1 801,222 + CCNA_00743 0.49 +0.8 801,231 + CCNA_00743 0.51 -0.7 801,231 + CCNA_00743 0.51 -0.0 801,231 + CCNA_00743 0.51 -0.6 801,231 + CCNA_00743 0.51 -0.2 801,231 + CCNA_00743 0.51 +0.9 801,239 - CCNA_00743 0.52 -0.7 801,239 - CCNA_00743 0.52 -1.0 801,239 - CCNA_00743 0.52 -1.0 801,239 - CCNA_00743 0.52 +0.2 801,239 - CCNA_00743 0.52 +1.8 801,244 - CCNA_00743 0.53 -0.9 801,266 + CCNA_00743 0.57 +0.1 801,274 - CCNA_00743 0.58 -1.5 801,291 + CCNA_00743 0.61 +0.3 801,305 - CCNA_00743 0.64 +0.4 801,320 - CCNA_00743 0.66 -1.7 801,322 - CCNA_00743 0.67 +1.3 801,337 + CCNA_00743 0.69 -0.5 801,342 + CCNA_00743 0.70 -0.1 801,342 + CCNA_00743 0.70 -0.0 801,345 - CCNA_00743 0.71 -0.1 801,345 - CCNA_00743 0.71 -1.6 801,392 + CCNA_00743 0.79 -0.1 801,401 + CCNA_00743 0.81 -0.6 801,402 + CCNA_00743 0.81 -0.7 801,402 + CCNA_00743 0.81 -0.5 801,410 - CCNA_00743 0.82 -0.2 801,418 + CCNA_00743 0.84 +1.0 801,418 + CCNA_00743 0.84 -0.1 801,418 + CCNA_00743 0.84 -1.3 801,435 + CCNA_00743 0.87 -0.9 801,438 - CCNA_00743 0.87 +0.6 801,443 - CCNA_00743 0.88 +1.1 801,469 + -0.8 801,483 + -1.2 801,506 + +0.1 801,556 + -1.0 801,564 + +0.1 801,564 + +0.2 801,572 - -0.7 801,572 - -1.9 801,596 + -0.2 801,596 + +0.3 801,596 + -1.4 801,604 - +0.1 801,604 - +2.0 801,604 - +0.3 801,623 - -1.3 801,628 - -1.1 801,628 - +0.6 801,628 - +0.8 801,643 + +0.5 801,666 + +1.1 801,669 - +0.2 801,674 - -1.3 801,764 + -0.5 801,764 + +0.4 801,777 - -0.1 801,797 + CCNA_00744 0.16 -1.2 801,801 + CCNA_00744 0.17 +0.9 801,801 + CCNA_00744 0.17 +0.3 801,809 - CCNA_00744 0.20 -0.3 801,812 + CCNA_00744 0.21 -1.1 801,842 + CCNA_00744 0.32 -0.3 801,842 - CCNA_00744 0.32 +0.6 801,862 - CCNA_00744 0.39 -0.1 801,867 - CCNA_00744 0.40 -1.3 801,892 + CCNA_00744 0.49 -0.3 801,892 + CCNA_00744 0.49 -0.6 801,892 + CCNA_00744 0.49 -0.8 801,939 - CCNA_00744 0.66 -1.9 801,945 + CCNA_00744 0.68 -0.6 801,965 - CCNA_00744 0.75 +0.7 801,989 - CCNA_00744 0.83 +0.8 801,989 - CCNA_00744 0.83 +0.3 802,047 - +0.2 802,054 - -0.6 802,061 + -0.1 802,061 + -0.1 802,061 + +0.7 802,061 + +1.0 802,064 - -0.8 802,069 - -0.3 802,069 - -0.3 802,069 - +0.9 802,069 - +0.2 802,069 - -2.1 802,069 - +1.6 802,070 + -0.0 802,080 - +0.1 802,093 + -0.9 802,101 - -0.6 802,132 + -0.4 802,140 - +1.6 802,184 + -0.3 802,192 - -0.7 802,192 - -1.1 802,199 + -0.1 802,207 - +1.0 802,214 - -0.1 802,269 - +0.6 802,302 + +1.6 802,310 - +0.3 802,330 + +1.3 802,370 + -0.1 802,393 - -1.5 802,399 - -0.3 802,400 + +0.3 802,415 + +1.3 802,423 - +1.1 802,423 - -1.2 802,423 - -0.5 802,438 + -1.0 802,446 + +0.4 802,494 + +0.7 802,502 - +0.9 802,502 - -0.2 802,519 - +0.6 802,534 - CCNA_00745 0.66 -1.0 802,571 + CCNA_00745 0.71 -1.4 802,578 + CCNA_00745 0.72 -0.9 802,580 - CCNA_00745 0.72 +1.6 802,586 - CCNA_00745 0.73 +0.1 802,594 + CCNA_00745 0.74 -0.2 802,594 + CCNA_00745 0.74 +0.2 802,602 - CCNA_00745 0.75 -0.9 802,618 - CCNA_00745 0.78 -0.5 802,658 + CCNA_00745 0.83 -0.6 802,680 + CCNA_00745 0.87 -2.5 802,685 + CCNA_00745 0.87 -2.3 802,693 - CCNA_00745 0.88 -1.3 802,705 - -0.0 802,705 - -1.1 802,705 - +0.6 802,739 + -0.4 802,739 + -2.2 802,745 + +0.0 802,745 + -0.9 802,856 - CCNA_00746 0.12 -0.4 802,865 + CCNA_00746 0.13 -0.7 802,873 - CCNA_00746 0.14 -0.6 802,884 + CCNA_00746 0.16 -2.0 802,897 + CCNA_00746 0.17 +0.0 802,906 - CCNA_00746 0.19 -1.7 802,919 + CCNA_00746 0.20 +2.2 802,919 + +2.3 802,919 + CCNA_00746 0.20 -0.8 802,927 - CCNA_00746 0.21 +1.1 802,927 - CCNA_00746 0.21 -1.6 802,927 - CCNA_00746 0.21 -0.1 802,927 - CCNA_00746 0.21 +0.8 802,932 - CCNA_00746 0.22 -1.1 802,950 + CCNA_00746 0.25 -0.3 802,952 + +2.3 802,992 - CCNA_00746 0.30 +1.6 803,003 + CCNA_00746 0.32 -0.3 803,003 + CCNA_00746 0.32 +4.3 803,003 + CCNA_00746 0.32 -1.9 803,003 + CCNA_00746 0.32 +2.5 803,011 - CCNA_00746 0.33 +0.8 803,011 - CCNA_00746 0.33 +0.6 803,011 - CCNA_00746 0.33 +1.0 803,020 + CCNA_00746 0.34 -0.1 803,028 - CCNA_00746 0.35 -0.4 803,028 - CCNA_00746 0.35 -0.8 803,041 + CCNA_00746 0.37 +0.3 803,052 + CCNA_00746 0.39 -0.3 803,052 + CCNA_00746 0.39 +0.3 803,060 - CCNA_00746 0.40 +0.9 803,060 - CCNA_00746 0.40 +0.0 803,108 - CCNA_00746 0.46 -0.3 803,130 + CCNA_00746 0.49 +0.3 803,151 - CCNA_00746 0.52 -1.1 803,161 + CCNA_00746 0.54 +0.1 803,181 + CCNA_00746 0.56 -1.8 803,184 - CCNA_00746 0.57 +1.0 803,226 + CCNA_00746 0.63 -1.2 803,226 + CCNA_00746 0.63 +0.1 803,226 + CCNA_00746 0.63 +0.3 803,226 + CCNA_00746 0.63 +1.4 803,226 + CCNA_00746 0.63 +0.3 803,234 - CCNA_00746 0.64 +0.1 803,234 - CCNA_00746 0.64 -1.4 803,234 - CCNA_00746 0.64 +0.9 803,234 - +0.7 803,236 + CCNA_00746 0.64 +0.1 803,244 - CCNA_00746 0.65 -0.7 803,244 - CCNA_00746 0.65 +1.4 803,254 + CCNA_00746 0.67 -0.4 803,262 - CCNA_00746 0.68 -1.7 803,262 - CCNA_00746 0.68 -2.4 803,273 + CCNA_00746 0.69 +0.7 803,287 - CCNA_00746 0.71 -0.2 803,287 - CCNA_00746 0.71 +1.4 803,289 + CCNA_00746 0.71 +0.4 803,295 - CCNA_00746 0.72 -0.4 803,295 - CCNA_00746 0.72 +1.4 803,312 + CCNA_00746 0.75 -1.3 803,375 - CCNA_00746 0.83 -0.2 803,386 + CCNA_00746 0.85 -0.0 803,394 - CCNA_00746 0.86 -1.5 803,410 + CCNA_00746 0.88 -0.6 803,432 + -1.3 803,440 - +0.3 803,440 - +0.6 803,482 + +0.0 803,482 + +1.0 803,482 + -0.4 803,482 + +0.5 803,490 - +0.5 803,490 - +0.3 803,490 - -1.2 803,521 + +0.4 803,549 + -0.0 803,570 + -1.3 803,578 - -0.3 803,591 + +1.5 803,599 - +1.4 803,603 - +0.5 803,658 + -0.7 803,658 + +0.2 803,661 - +0.9 803,661 - +1.2 803,666 - -0.0 803,703 + +1.3 803,717 - -0.2
Or see this region's nucleotide sequence