Experiment: PYE with Tetracycline 0.00005 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_00879 and CCNA_00880 are separated by 319 nucleotides CCNA_00880 and CCNA_00881 overlap by 4 nucleotides CCNA_00881 and CCNA_00882 are separated by 155 nucleotides
CCNA_00879: CCNA_00879 - PAS-family sensor histidine kinase, at 956,807 to 959,071
_00879
CCNA_00880: CCNA_00880 - hypothetical protein, at 959,391 to 960,950
_00880
CCNA_00881: CCNA_00881 - ABC transporter ATP-binding protein, at 960,947 to 961,699
_00881
CCNA_00882: CCNA_00882 - hypothetical protein, at 961,855 to 962,853
_00882
Position (kb) 959
960
961 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3
4 at 958.431 kb on - strand, within CCNA_00879 at 958.431 kb on - strand, within CCNA_00879 at 958.459 kb on - strand, within CCNA_00879 at 958.523 kb on + strand, within CCNA_00879 at 958.552 kb on - strand, within CCNA_00879 at 958.552 kb on - strand, within CCNA_00879 at 958.559 kb on + strand, within CCNA_00879 at 958.564 kb on + strand, within CCNA_00879 at 958.593 kb on + strand, within CCNA_00879 at 958.593 kb on + strand, within CCNA_00879 at 958.594 kb on + strand, within CCNA_00879 at 958.594 kb on + strand, within CCNA_00879 at 958.654 kb on - strand, within CCNA_00879 at 958.671 kb on + strand, within CCNA_00879 at 958.679 kb on - strand, within CCNA_00879 at 958.706 kb on + strand, within CCNA_00879 at 958.706 kb on + strand, within CCNA_00879 at 958.728 kb on + strand, within CCNA_00879 at 958.762 kb on + strand, within CCNA_00879 at 958.770 kb on - strand, within CCNA_00879 at 958.773 kb on + strand, within CCNA_00879 at 958.783 kb on + strand, within CCNA_00879 at 958.783 kb on + strand, within CCNA_00879 at 958.783 kb on + strand at 958.783 kb on + strand at 958.783 kb on + strand, within CCNA_00879 at 958.783 kb on + strand, within CCNA_00879 at 958.783 kb on + strand, within CCNA_00879 at 958.783 kb on + strand, within CCNA_00879 at 958.783 kb on + strand, within CCNA_00879 at 958.783 kb on + strand, within CCNA_00879 at 958.790 kb on + strand, within CCNA_00879 at 958.791 kb on - strand, within CCNA_00879 at 958.791 kb on - strand, within CCNA_00879 at 958.791 kb on - strand, within CCNA_00879 at 958.791 kb on - strand, within CCNA_00879 at 958.791 kb on - strand, within CCNA_00879 at 958.791 kb on - strand, within CCNA_00879 at 958.791 kb on - strand, within CCNA_00879 at 958.791 kb on - strand, within CCNA_00879 at 958.793 kb on - strand, within CCNA_00879 at 958.822 kb on + strand, within CCNA_00879 at 958.825 kb on - strand, within CCNA_00879 at 958.825 kb on - strand, within CCNA_00879 at 958.840 kb on + strand, within CCNA_00879 at 958.870 kb on - strand at 958.870 kb on - strand at 958.901 kb on + strand at 958.906 kb on + strand at 958.906 kb on + strand at 958.906 kb on + strand at 958.909 kb on - strand at 958.909 kb on - strand at 958.914 kb on - strand at 958.914 kb on - strand at 958.943 kb on + strand at 958.951 kb on - strand at 958.951 kb on - strand at 959.034 kb on - strand at 959.035 kb on - strand at 959.038 kb on + strand at 959.046 kb on - strand at 959.051 kb on - strand at 959.059 kb on + strand at 959.059 kb on + strand at 959.059 kb on + strand at 959.067 kb on - strand at 959.067 kb on - strand at 959.073 kb on - strand at 959.089 kb on - strand at 959.184 kb on + strand at 959.187 kb on + strand at 959.187 kb on + strand at 959.197 kb on + strand at 959.197 kb on + strand at 959.218 kb on + strand at 959.236 kb on + strand at 959.246 kb on + strand at 959.262 kb on - strand at 959.298 kb on - strand at 959.316 kb on - strand at 959.411 kb on - strand at 959.455 kb on + strand at 959.463 kb on - strand at 959.463 kb on - strand at 959.512 kb on + strand at 959.548 kb on + strand, within CCNA_00880 at 959.548 kb on + strand, within CCNA_00880 at 959.551 kb on - strand, within CCNA_00880 at 959.648 kb on - strand, within CCNA_00880 at 959.688 kb on - strand, within CCNA_00880 at 959.697 kb on - strand, within CCNA_00880 at 959.712 kb on + strand, within CCNA_00880 at 959.715 kb on - strand, within CCNA_00880 at 959.715 kb on - strand, within CCNA_00880 at 959.720 kb on - strand, within CCNA_00880 at 959.720 kb on - strand, within CCNA_00880 at 959.759 kb on + strand, within CCNA_00880 at 959.766 kb on + strand, within CCNA_00880 at 959.767 kb on - strand, within CCNA_00880 at 959.806 kb on - strand, within CCNA_00880 at 959.820 kb on - strand, within CCNA_00880 at 959.827 kb on - strand, within CCNA_00880 at 959.875 kb on - strand, within CCNA_00880 at 959.966 kb on - strand, within CCNA_00880 at 959.990 kb on - strand, within CCNA_00880 at 959.990 kb on - strand, within CCNA_00880 at 959.997 kb on + strand, within CCNA_00880 at 960.010 kb on - strand, within CCNA_00880 at 960.054 kb on - strand, within CCNA_00880 at 960.062 kb on - strand, within CCNA_00880 at 960.078 kb on - strand, within CCNA_00880 at 960.158 kb on - strand, within CCNA_00880 at 960.173 kb on + strand, within CCNA_00880 at 960.173 kb on + strand, within CCNA_00880 at 960.173 kb on + strand, within CCNA_00880 at 960.173 kb on + strand, within CCNA_00880 at 960.173 kb on + strand, within CCNA_00880 at 960.173 kb on + strand, within CCNA_00880 at 960.181 kb on - strand, within CCNA_00880 at 960.181 kb on - strand, within CCNA_00880 at 960.181 kb on - strand, within CCNA_00880 at 960.181 kb on - strand, within CCNA_00880 at 960.231 kb on - strand, within CCNA_00880 at 960.247 kb on - strand, within CCNA_00880 at 960.278 kb on + strand, within CCNA_00880 at 960.279 kb on + strand, within CCNA_00880 at 960.287 kb on - strand, within CCNA_00880 at 960.287 kb on - strand, within CCNA_00880 at 960.331 kb on + strand, within CCNA_00880 at 960.339 kb on - strand, within CCNA_00880 at 960.351 kb on + strand, within CCNA_00880 at 960.359 kb on - strand, within CCNA_00880 at 960.359 kb on - strand, within CCNA_00880 at 960.369 kb on - strand, within CCNA_00880 at 960.374 kb on - strand, within CCNA_00880 at 960.392 kb on + strand, within CCNA_00880 at 960.394 kb on + strand, within CCNA_00880 at 960.394 kb on - strand, within CCNA_00880 at 960.409 kb on + strand, within CCNA_00880 at 960.417 kb on - strand, within CCNA_00880 at 960.436 kb on + strand, within CCNA_00880 at 960.440 kb on + strand, within CCNA_00880 at 960.462 kb on + strand, within CCNA_00880 at 960.477 kb on + strand at 960.483 kb on - strand, within CCNA_00880 at 960.494 kb on + strand, within CCNA_00880 at 960.497 kb on - strand, within CCNA_00880 at 960.512 kb on - strand, within CCNA_00880 at 960.514 kb on + strand, within CCNA_00880 at 960.584 kb on + strand, within CCNA_00880 at 960.593 kb on - strand, within CCNA_00880 at 960.593 kb on - strand, within CCNA_00880 at 960.615 kb on - strand, within CCNA_00880 at 960.623 kb on + strand, within CCNA_00880 at 960.642 kb on + strand, within CCNA_00880 at 960.650 kb on - strand, within CCNA_00880 at 960.665 kb on - strand, within CCNA_00880 at 960.688 kb on + strand, within CCNA_00880 at 960.696 kb on - strand, within CCNA_00880 at 960.696 kb on - strand, within CCNA_00880 at 960.722 kb on + strand, within CCNA_00880 at 960.730 kb on - strand, within CCNA_00880 at 960.834 kb on + strand at 960.834 kb on + strand at 960.842 kb on - strand at 960.842 kb on - strand at 960.842 kb on - strand at 960.864 kb on + strand at 960.888 kb on + strand at 960.946 kb on + strand at 960.952 kb on + strand at 960.963 kb on + strand at 961.019 kb on + strand at 961.086 kb on + strand, within CCNA_00881 at 961.086 kb on + strand, within CCNA_00881 at 961.094 kb on - strand, within CCNA_00881 at 961.116 kb on - strand, within CCNA_00881 at 961.151 kb on + strand, within CCNA_00881 at 961.164 kb on + strand, within CCNA_00881 at 961.190 kb on + strand, within CCNA_00881 at 961.199 kb on + strand, within CCNA_00881 at 961.207 kb on - strand, within CCNA_00881 at 961.207 kb on - strand, within CCNA_00881 at 961.207 kb on - strand, within CCNA_00881 at 961.208 kb on - strand, within CCNA_00881 at 961.217 kb on + strand, within CCNA_00881 at 961.233 kb on - strand, within CCNA_00881 at 961.246 kb on - strand, within CCNA_00881 at 961.260 kb on + strand, within CCNA_00881 at 961.275 kb on - strand, within CCNA_00881 at 961.301 kb on - strand, within CCNA_00881 at 961.318 kb on + strand, within CCNA_00881 at 961.326 kb on - strand, within CCNA_00881 at 961.328 kb on + strand, within CCNA_00881 at 961.337 kb on - strand, within CCNA_00881 at 961.344 kb on + strand, within CCNA_00881 at 961.344 kb on + strand, within CCNA_00881 at 961.344 kb on + strand, within CCNA_00881 at 961.344 kb on + strand, within CCNA_00881 at 961.344 kb on + strand, within CCNA_00881 at 961.352 kb on - strand, within CCNA_00881 at 961.352 kb on - strand, within CCNA_00881 at 961.352 kb on - strand, within CCNA_00881 at 961.352 kb on - strand, within CCNA_00881 at 961.352 kb on - strand, within CCNA_00881 at 961.352 kb on - strand, within CCNA_00881 at 961.352 kb on - strand, within CCNA_00881 at 961.352 kb on - strand, within CCNA_00881 at 961.365 kb on + strand, within CCNA_00881 at 961.403 kb on + strand, within CCNA_00881 at 961.451 kb on + strand, within CCNA_00881 at 961.462 kb on - strand, within CCNA_00881 at 961.529 kb on + strand, within CCNA_00881 at 961.529 kb on + strand, within CCNA_00881 at 961.536 kb on - strand, within CCNA_00881 at 961.554 kb on + strand, within CCNA_00881 at 961.569 kb on + strand, within CCNA_00881 at 961.574 kb on + strand, within CCNA_00881 at 961.590 kb on + strand at 961.595 kb on + strand, within CCNA_00881 at 961.598 kb on - strand, within CCNA_00881 at 961.603 kb on - strand, within CCNA_00881 at 961.618 kb on + strand, within CCNA_00881 at 961.646 kb on - strand at 961.646 kb on - strand at 961.646 kb on - strand at 961.646 kb on - strand at 961.658 kb on - strand at 961.677 kb on - strand at 961.682 kb on + strand at 961.690 kb on - strand at 961.702 kb on - strand at 961.714 kb on - strand at 961.733 kb on - strand at 961.743 kb on + strand at 961.828 kb on - strand at 961.848 kb on - strand at 961.853 kb on + strand at 961.861 kb on - strand at 961.861 kb on - strand at 961.879 kb on + strand at 961.889 kb on + strand at 961.903 kb on - strand at 961.942 kb on - strand
Per-strain Table
Position Strand Gene LocusTag Fraction PYE with Tetracycline 0.00005 mg/ml remove 958,431 - CCNA_00879 0.72 -1.3 958,431 - CCNA_00879 0.72 -1.1 958,459 - CCNA_00879 0.73 +3.2 958,523 + CCNA_00879 0.76 -1.5 958,552 - CCNA_00879 0.77 +0.2 958,552 - CCNA_00879 0.77 -1.4 958,559 + CCNA_00879 0.77 -1.5 958,564 + CCNA_00879 0.78 +0.4 958,593 + CCNA_00879 0.79 +0.0 958,593 + CCNA_00879 0.79 +0.7 958,594 + CCNA_00879 0.79 +0.1 958,594 + CCNA_00879 0.79 -0.3 958,654 - CCNA_00879 0.82 -2.6 958,671 + CCNA_00879 0.82 +0.7 958,679 - CCNA_00879 0.83 -1.7 958,706 + CCNA_00879 0.84 -1.7 958,706 + CCNA_00879 0.84 +0.7 958,728 + CCNA_00879 0.85 -0.8 958,762 + CCNA_00879 0.86 +0.2 958,770 - CCNA_00879 0.87 +0.3 958,773 + CCNA_00879 0.87 +0.9 958,783 + CCNA_00879 0.87 -0.1 958,783 + CCNA_00879 0.87 -0.7 958,783 + +0.8 958,783 + +0.8 958,783 + CCNA_00879 0.87 +0.2 958,783 + CCNA_00879 0.87 +1.2 958,783 + CCNA_00879 0.87 -1.8 958,783 + CCNA_00879 0.87 -0.0 958,783 + CCNA_00879 0.87 +1.2 958,783 + CCNA_00879 0.87 -0.4 958,790 + CCNA_00879 0.88 +1.6 958,791 - CCNA_00879 0.88 +0.4 958,791 - CCNA_00879 0.88 -0.3 958,791 - CCNA_00879 0.88 -0.2 958,791 - CCNA_00879 0.88 -0.7 958,791 - CCNA_00879 0.88 +1.1 958,791 - CCNA_00879 0.88 +0.5 958,791 - CCNA_00879 0.88 +0.8 958,791 - CCNA_00879 0.88 -0.2 958,793 - CCNA_00879 0.88 +0.2 958,822 + CCNA_00879 0.89 +0.3 958,825 - CCNA_00879 0.89 -2.3 958,825 - CCNA_00879 0.89 -1.2 958,840 + CCNA_00879 0.90 -0.1 958,870 - -1.2 958,870 - +0.2 958,901 + +0.5 958,906 + -0.7 958,906 + +1.7 958,906 + +0.5 958,909 - -0.2 958,909 - -1.5 958,914 - +0.8 958,914 - -1.4 958,943 + +1.1 958,951 - +0.0 958,951 - -0.9 959,034 - -0.6 959,035 - -3.1 959,038 + -1.6 959,046 - -0.7 959,051 - -0.4 959,059 + +0.2 959,059 + +0.6 959,059 + +1.3 959,067 - -1.8 959,067 - +0.3 959,073 - -1.0 959,089 - +1.2 959,184 + -0.3 959,187 + +1.0 959,187 + +0.6 959,197 + +0.6 959,197 + +1.6 959,218 + -0.8 959,236 + -0.0 959,246 + -1.8 959,262 - +1.3 959,298 - +0.2 959,316 - +0.3 959,411 - +0.3 959,455 + -0.5 959,463 - +1.1 959,463 - -1.4 959,512 + -0.7 959,548 + CCNA_00880 0.10 -1.1 959,548 + CCNA_00880 0.10 -3.1 959,551 - CCNA_00880 0.10 +1.9 959,648 - CCNA_00880 0.16 -1.1 959,688 - CCNA_00880 0.19 -1.5 959,697 - CCNA_00880 0.20 +0.3 959,712 + CCNA_00880 0.21 -2.3 959,715 - CCNA_00880 0.21 -1.1 959,715 - CCNA_00880 0.21 +0.7 959,720 - CCNA_00880 0.21 -0.6 959,720 - CCNA_00880 0.21 -0.0 959,759 + CCNA_00880 0.24 +0.3 959,766 + CCNA_00880 0.24 -0.4 959,767 - CCNA_00880 0.24 -3.7 959,806 - CCNA_00880 0.27 -0.4 959,820 - CCNA_00880 0.28 -2.1 959,827 - CCNA_00880 0.28 -0.2 959,875 - CCNA_00880 0.31 -1.7 959,966 - CCNA_00880 0.37 -2.2 959,990 - CCNA_00880 0.38 -2.5 959,990 - CCNA_00880 0.38 -0.1 959,997 + CCNA_00880 0.39 -2.7 960,010 - CCNA_00880 0.40 -0.4 960,054 - CCNA_00880 0.42 +0.7 960,062 - CCNA_00880 0.43 +0.5 960,078 - CCNA_00880 0.44 +0.1 960,158 - CCNA_00880 0.49 -1.9 960,173 + CCNA_00880 0.50 -0.0 960,173 + CCNA_00880 0.50 -0.8 960,173 + CCNA_00880 0.50 -0.9 960,173 + CCNA_00880 0.50 -0.7 960,173 + CCNA_00880 0.50 -2.3 960,173 + CCNA_00880 0.50 -0.2 960,181 - CCNA_00880 0.51 -2.3 960,181 - CCNA_00880 0.51 -0.7 960,181 - CCNA_00880 0.51 -0.2 960,181 - CCNA_00880 0.51 -2.4 960,231 - CCNA_00880 0.54 -0.8 960,247 - CCNA_00880 0.55 -1.3 960,278 + CCNA_00880 0.57 -0.7 960,279 + CCNA_00880 0.57 -0.3 960,287 - CCNA_00880 0.57 +0.5 960,287 - CCNA_00880 0.57 -0.2 960,331 + CCNA_00880 0.60 -0.5 960,339 - CCNA_00880 0.61 -0.5 960,351 + CCNA_00880 0.62 -2.0 960,359 - CCNA_00880 0.62 +0.4 960,359 - CCNA_00880 0.62 -0.0 960,369 - CCNA_00880 0.63 -1.9 960,374 - CCNA_00880 0.63 -2.5 960,392 + CCNA_00880 0.64 -0.8 960,394 + CCNA_00880 0.64 -0.2 960,394 - CCNA_00880 0.64 -1.0 960,409 + CCNA_00880 0.65 -1.2 960,417 - CCNA_00880 0.66 +0.8 960,436 + CCNA_00880 0.67 -0.4 960,440 + CCNA_00880 0.67 -2.5 960,462 + CCNA_00880 0.69 -0.5 960,477 + +0.3 960,483 - CCNA_00880 0.70 +0.5 960,494 + CCNA_00880 0.71 -1.5 960,497 - CCNA_00880 0.71 -0.2 960,512 - CCNA_00880 0.72 -1.1 960,514 + CCNA_00880 0.72 +1.4 960,584 + CCNA_00880 0.76 -0.7 960,593 - CCNA_00880 0.77 -0.0 960,593 - CCNA_00880 0.77 -0.6 960,615 - CCNA_00880 0.78 +0.3 960,623 + CCNA_00880 0.79 +0.4 960,642 + CCNA_00880 0.80 -0.4 960,650 - CCNA_00880 0.81 -0.1 960,665 - CCNA_00880 0.82 -1.7 960,688 + CCNA_00880 0.83 -0.7 960,696 - CCNA_00880 0.84 -0.2 960,696 - CCNA_00880 0.84 +1.0 960,722 + CCNA_00880 0.85 -1.2 960,730 - CCNA_00880 0.86 +0.3 960,834 + +0.3 960,834 + -1.5 960,842 - +0.6 960,842 - -0.0 960,842 - +1.3 960,864 + -0.5 960,888 + -0.8 960,946 + +0.1 960,952 + -0.2 960,963 + -1.6 961,019 + -2.1 961,086 + CCNA_00881 0.18 +0.3 961,086 + CCNA_00881 0.18 -0.2 961,094 - CCNA_00881 0.20 -0.5 961,116 - CCNA_00881 0.22 +0.3 961,151 + CCNA_00881 0.27 -0.3 961,164 + CCNA_00881 0.29 -2.3 961,190 + CCNA_00881 0.32 -0.2 961,199 + CCNA_00881 0.33 -1.8 961,207 - CCNA_00881 0.35 -0.7 961,207 - CCNA_00881 0.35 +1.3 961,207 - CCNA_00881 0.35 -0.4 961,208 - CCNA_00881 0.35 +0.8 961,217 + CCNA_00881 0.36 -0.5 961,233 - CCNA_00881 0.38 -0.7 961,246 - CCNA_00881 0.40 -0.0 961,260 + CCNA_00881 0.42 -1.1 961,275 - CCNA_00881 0.44 -0.8 961,301 - CCNA_00881 0.47 -2.6 961,318 + CCNA_00881 0.49 +0.1 961,326 - CCNA_00881 0.50 -0.8 961,328 + CCNA_00881 0.51 -0.3 961,337 - CCNA_00881 0.52 -0.0 961,344 + CCNA_00881 0.53 +1.2 961,344 + CCNA_00881 0.53 -1.0 961,344 + CCNA_00881 0.53 -1.0 961,344 + CCNA_00881 0.53 +0.6 961,344 + CCNA_00881 0.53 +0.0 961,352 - CCNA_00881 0.54 +1.2 961,352 - CCNA_00881 0.54 -1.0 961,352 - CCNA_00881 0.54 -2.4 961,352 - CCNA_00881 0.54 +0.5 961,352 - CCNA_00881 0.54 -0.9 961,352 - CCNA_00881 0.54 +1.3 961,352 - CCNA_00881 0.54 -0.0 961,352 - CCNA_00881 0.54 -1.4 961,365 + CCNA_00881 0.56 -0.8 961,403 + CCNA_00881 0.61 +0.5 961,451 + CCNA_00881 0.67 -2.1 961,462 - CCNA_00881 0.68 -0.5 961,529 + CCNA_00881 0.77 +0.2 961,529 + CCNA_00881 0.77 -1.9 961,536 - CCNA_00881 0.78 -0.0 961,554 + CCNA_00881 0.81 -1.7 961,569 + CCNA_00881 0.83 +0.8 961,574 + CCNA_00881 0.83 +0.1 961,590 + +4.4 961,595 + CCNA_00881 0.86 -0.4 961,598 - CCNA_00881 0.86 -2.8 961,603 - CCNA_00881 0.87 -0.3 961,618 + CCNA_00881 0.89 -0.7 961,646 - +0.4 961,646 - -0.6 961,646 - -1.0 961,646 - -0.3 961,658 - +1.4 961,677 - +1.2 961,682 + -0.0 961,690 - -1.4 961,702 - -1.5 961,714 - +0.7 961,733 - -0.0 961,743 + -0.7 961,828 - -0.8 961,848 - +1.5 961,853 + +0.6 961,861 - -2.0 961,861 - -0.4 961,879 + +0.4 961,889 + -0.3 961,903 - -0.8 961,942 - -0.9
Or see this region's nucleotide sequence