Experiment: PYE with Gentamicin 0.0005 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_00170 and CCNA_00171 are separated by 189 nucleotides CCNA_00171 and CCNA_00172 overlap by 4 nucleotides
CCNA_00170: CCNA_00170 - TonB-dependent receptor, at 182,997 to 185,663
_00170
CCNA_00171: CCNA_00171 - type II secretion pathway protein C, at 185,853 to 186,290
_00171
CCNA_00172: CCNA_00172 - type II secretion pathway protein D, at 186,287 to 188,350
_00172
Position (kb) 185
186
187 Strain fitness (log2 ratio) -2
-1
0
1
2
3 at 184.898 kb on + strand, within CCNA_00170 at 184.939 kb on + strand, within CCNA_00170 at 184.964 kb on + strand, within CCNA_00170 at 184.967 kb on - strand, within CCNA_00170 at 184.986 kb on + strand, within CCNA_00170 at 185.030 kb on + strand, within CCNA_00170 at 185.030 kb on + strand, within CCNA_00170 at 185.052 kb on + strand, within CCNA_00170 at 185.079 kb on + strand, within CCNA_00170 at 185.114 kb on + strand, within CCNA_00170 at 185.114 kb on + strand, within CCNA_00170 at 185.125 kb on - strand, within CCNA_00170 at 185.136 kb on + strand, within CCNA_00170 at 185.162 kb on + strand, within CCNA_00170 at 185.162 kb on + strand, within CCNA_00170 at 185.169 kb on + strand, within CCNA_00170 at 185.170 kb on - strand, within CCNA_00170 at 185.174 kb on + strand, within CCNA_00170 at 185.174 kb on + strand, within CCNA_00170 at 185.229 kb on + strand, within CCNA_00170 at 185.255 kb on + strand, within CCNA_00170 at 185.289 kb on + strand, within CCNA_00170 at 185.305 kb on - strand, within CCNA_00170 at 185.308 kb on + strand, within CCNA_00170 at 185.322 kb on + strand, within CCNA_00170 at 185.322 kb on + strand, within CCNA_00170 at 185.344 kb on + strand, within CCNA_00170 at 185.344 kb on + strand, within CCNA_00170 at 185.352 kb on - strand, within CCNA_00170 at 185.352 kb on - strand, within CCNA_00170 at 185.356 kb on + strand, within CCNA_00170 at 185.356 kb on + strand, within CCNA_00170 at 185.356 kb on + strand, within CCNA_00170 at 185.364 kb on - strand, within CCNA_00170 at 185.390 kb on - strand, within CCNA_00170 at 185.391 kb on + strand, within CCNA_00170 at 185.394 kb on - strand, within CCNA_00170 at 185.394 kb on - strand, within CCNA_00170 at 185.425 kb on + strand at 185.425 kb on + strand at 185.433 kb on - strand at 185.433 kb on - strand at 185.435 kb on + strand at 185.445 kb on + strand at 185.465 kb on - strand at 185.467 kb on + strand at 185.485 kb on + strand at 185.493 kb on - strand at 185.502 kb on + strand at 185.510 kb on - strand at 185.511 kb on + strand at 185.511 kb on - strand at 185.511 kb on - strand at 185.511 kb on - strand at 185.511 kb on - strand at 185.511 kb on - strand at 185.511 kb on - strand at 185.511 kb on - strand at 185.566 kb on + strand at 185.574 kb on + strand at 185.574 kb on - strand at 185.582 kb on - strand at 185.606 kb on + strand at 185.657 kb on + strand at 185.657 kb on + strand at 185.657 kb on + strand at 185.657 kb on + strand at 185.657 kb on + strand at 185.657 kb on + strand at 185.657 kb on + strand at 185.657 kb on + strand at 185.657 kb on + strand at 185.657 kb on + strand at 185.657 kb on + strand at 185.665 kb on - strand at 185.665 kb on - strand at 185.665 kb on - strand at 185.665 kb on - strand at 185.679 kb on - strand at 185.684 kb on + strand at 185.692 kb on - strand at 185.703 kb on + strand at 185.711 kb on - strand at 185.759 kb on + strand at 185.809 kb on + strand at 185.809 kb on + strand at 185.814 kb on + strand at 185.817 kb on - strand at 185.818 kb on + strand at 185.855 kb on - strand at 185.856 kb on - strand at 185.860 kb on + strand at 185.860 kb on + strand at 185.861 kb on + strand at 185.867 kb on + strand at 185.868 kb on - strand at 185.892 kb on - strand at 185.892 kb on - strand at 185.892 kb on - strand at 185.898 kb on - strand, within CCNA_00171 at 185.912 kb on - strand, within CCNA_00171 at 185.920 kb on + strand, within CCNA_00171 at 186.036 kb on - strand, within CCNA_00171 at 186.038 kb on + strand, within CCNA_00171 at 186.038 kb on + strand at 186.141 kb on - strand, within CCNA_00171 at 186.150 kb on + strand, within CCNA_00171 at 186.170 kb on + strand, within CCNA_00171 at 186.178 kb on - strand, within CCNA_00171 at 186.202 kb on + strand, within CCNA_00171 at 186.220 kb on - strand, within CCNA_00171 at 186.242 kb on + strand, within CCNA_00171 at 186.242 kb on + strand, within CCNA_00171 at 186.264 kb on + strand at 186.264 kb on + strand at 186.264 kb on + strand at 186.269 kb on + strand at 186.271 kb on + strand at 186.271 kb on + strand at 186.272 kb on - strand at 186.272 kb on - strand at 186.279 kb on - strand at 186.314 kb on + strand at 186.340 kb on + strand at 186.346 kb on + strand at 186.348 kb on - strand at 186.357 kb on + strand at 186.401 kb on + strand at 186.504 kb on + strand, within CCNA_00172 at 186.520 kb on - strand, within CCNA_00172 at 186.532 kb on + strand, within CCNA_00172 at 186.532 kb on + strand, within CCNA_00172 at 186.532 kb on + strand, within CCNA_00172 at 186.541 kb on + strand, within CCNA_00172 at 186.603 kb on + strand, within CCNA_00172 at 186.611 kb on - strand, within CCNA_00172 at 186.636 kb on - strand, within CCNA_00172 at 186.738 kb on + strand, within CCNA_00172 at 186.742 kb on + strand, within CCNA_00172 at 186.742 kb on + strand, within CCNA_00172 at 186.744 kb on - strand, within CCNA_00172 at 186.744 kb on - strand, within CCNA_00172 at 186.767 kb on + strand, within CCNA_00172 at 186.823 kb on - strand, within CCNA_00172 at 186.826 kb on + strand, within CCNA_00172 at 186.830 kb on + strand, within CCNA_00172 at 186.830 kb on + strand, within CCNA_00172 at 186.835 kb on + strand, within CCNA_00172 at 186.838 kb on - strand, within CCNA_00172 at 186.847 kb on + strand, within CCNA_00172 at 186.847 kb on + strand, within CCNA_00172 at 186.847 kb on + strand, within CCNA_00172 at 186.856 kb on - strand, within CCNA_00172 at 186.861 kb on + strand, within CCNA_00172 at 186.861 kb on + strand, within CCNA_00172 at 186.869 kb on - strand, within CCNA_00172 at 186.891 kb on + strand, within CCNA_00172 at 186.891 kb on + strand, within CCNA_00172 at 186.896 kb on + strand, within CCNA_00172 at 186.899 kb on - strand, within CCNA_00172 at 186.904 kb on - strand, within CCNA_00172 at 186.926 kb on + strand, within CCNA_00172 at 186.931 kb on + strand, within CCNA_00172 at 186.931 kb on + strand, within CCNA_00172 at 186.939 kb on - strand, within CCNA_00172 at 186.939 kb on - strand, within CCNA_00172 at 186.939 kb on - strand, within CCNA_00172 at 186.939 kb on - strand, within CCNA_00172 at 186.950 kb on - strand at 186.965 kb on - strand, within CCNA_00172 at 186.965 kb on - strand, within CCNA_00172 at 187.013 kb on + strand, within CCNA_00172 at 187.021 kb on - strand, within CCNA_00172 at 187.021 kb on - strand at 187.060 kb on + strand, within CCNA_00172 at 187.066 kb on - strand, within CCNA_00172 at 187.096 kb on + strand, within CCNA_00172 at 187.096 kb on + strand, within CCNA_00172 at 187.111 kb on + strand, within CCNA_00172 at 187.152 kb on + strand, within CCNA_00172 at 187.164 kb on + strand, within CCNA_00172 at 187.172 kb on - strand, within CCNA_00172 at 187.230 kb on + strand, within CCNA_00172 at 187.268 kb on + strand, within CCNA_00172
Per-strain Table
Position Strand Gene LocusTag Fraction PYE with Gentamicin 0.0005 mg/ml remove 184,898 + CCNA_00170 0.71 +0.1 184,939 + CCNA_00170 0.73 -0.3 184,964 + CCNA_00170 0.74 -0.4 184,967 - CCNA_00170 0.74 -2.3 184,986 + CCNA_00170 0.75 -0.0 185,030 + CCNA_00170 0.76 +0.0 185,030 + CCNA_00170 0.76 -0.8 185,052 + CCNA_00170 0.77 -0.8 185,079 + CCNA_00170 0.78 -0.3 185,114 + CCNA_00170 0.79 +1.1 185,114 + CCNA_00170 0.79 -0.1 185,125 - CCNA_00170 0.80 -1.1 185,136 + CCNA_00170 0.80 -2.4 185,162 + CCNA_00170 0.81 -0.4 185,162 + CCNA_00170 0.81 -1.5 185,169 + CCNA_00170 0.81 -0.8 185,170 - CCNA_00170 0.81 -0.6 185,174 + CCNA_00170 0.82 +0.1 185,174 + CCNA_00170 0.82 +0.2 185,229 + CCNA_00170 0.84 -0.9 185,255 + CCNA_00170 0.85 +1.4 185,289 + CCNA_00170 0.86 -0.0 185,305 - CCNA_00170 0.87 -0.8 185,308 + CCNA_00170 0.87 -0.0 185,322 + CCNA_00170 0.87 +0.4 185,322 + CCNA_00170 0.87 +0.1 185,344 + CCNA_00170 0.88 -0.2 185,344 + CCNA_00170 0.88 -1.7 185,352 - CCNA_00170 0.88 -0.4 185,352 - CCNA_00170 0.88 +0.4 185,356 + CCNA_00170 0.88 -0.2 185,356 + CCNA_00170 0.88 -1.5 185,356 + CCNA_00170 0.88 +0.6 185,364 - CCNA_00170 0.89 -2.0 185,390 - CCNA_00170 0.90 -1.0 185,391 + CCNA_00170 0.90 -0.0 185,394 - CCNA_00170 0.90 +1.6 185,394 - CCNA_00170 0.90 -0.4 185,425 + +0.4 185,425 + -2.7 185,433 - +1.4 185,433 - +0.2 185,435 + -0.7 185,445 + +1.1 185,465 - +0.1 185,467 + -0.4 185,485 + -0.1 185,493 - -1.2 185,502 + +0.1 185,510 - -1.1 185,511 + -0.8 185,511 - -0.2 185,511 - +0.8 185,511 - +0.3 185,511 - +0.2 185,511 - -1.1 185,511 - -2.4 185,511 - -0.1 185,566 + +0.6 185,574 + +0.1 185,574 - -1.3 185,582 - +1.0 185,606 + +0.4 185,657 + +0.2 185,657 + -0.7 185,657 + -1.1 185,657 + +0.6 185,657 + +0.8 185,657 + -0.0 185,657 + +0.6 185,657 + -1.4 185,657 + -2.1 185,657 + +1.7 185,657 + -0.2 185,665 - +1.0 185,665 - -0.8 185,665 - -0.3 185,665 - +1.2 185,679 - -0.8 185,684 + -2.4 185,692 - +0.8 185,703 + -0.1 185,711 - -0.2 185,759 + +1.0 185,809 + -0.4 185,809 + -0.5 185,814 + +1.0 185,817 - +0.4 185,818 + +1.0 185,855 - +1.4 185,856 - +1.0 185,860 + -0.1 185,860 + +0.3 185,861 + +0.3 185,867 + +1.6 185,868 - -1.3 185,892 - -0.1 185,892 - -0.1 185,892 - +0.5 185,898 - CCNA_00171 0.10 -1.8 185,912 - CCNA_00171 0.13 +0.4 185,920 + CCNA_00171 0.15 -0.8 186,036 - CCNA_00171 0.42 -0.7 186,038 + CCNA_00171 0.42 +0.3 186,038 + +2.2 186,141 - CCNA_00171 0.66 -1.3 186,150 + CCNA_00171 0.68 -0.8 186,170 + CCNA_00171 0.72 -0.9 186,178 - CCNA_00171 0.74 -0.8 186,202 + CCNA_00171 0.80 +0.2 186,220 - CCNA_00171 0.84 -1.0 186,242 + CCNA_00171 0.89 -0.4 186,242 + CCNA_00171 0.89 -0.2 186,264 + -0.1 186,264 + +0.8 186,264 + -0.5 186,269 + -0.6 186,271 + +0.0 186,271 + +0.1 186,272 - -0.9 186,272 - -0.2 186,279 - -0.0 186,314 + -0.3 186,340 + -0.7 186,346 + -0.5 186,348 - -0.8 186,357 + -0.1 186,401 + +0.2 186,504 + CCNA_00172 0.11 -0.2 186,520 - CCNA_00172 0.11 -2.4 186,532 + CCNA_00172 0.12 +3.4 186,532 + CCNA_00172 0.12 -1.0 186,532 + CCNA_00172 0.12 -1.2 186,541 + CCNA_00172 0.12 +1.1 186,603 + CCNA_00172 0.15 -0.2 186,611 - CCNA_00172 0.16 -0.4 186,636 - CCNA_00172 0.17 -0.4 186,738 + CCNA_00172 0.22 +0.0 186,742 + CCNA_00172 0.22 +0.9 186,742 + CCNA_00172 0.22 -0.0 186,744 - CCNA_00172 0.22 -1.0 186,744 - CCNA_00172 0.22 +0.5 186,767 + CCNA_00172 0.23 -0.9 186,823 - CCNA_00172 0.26 -1.0 186,826 + CCNA_00172 0.26 -0.7 186,830 + CCNA_00172 0.26 -0.9 186,830 + CCNA_00172 0.26 +1.5 186,835 + CCNA_00172 0.27 -1.7 186,838 - CCNA_00172 0.27 -0.8 186,847 + CCNA_00172 0.27 -1.9 186,847 + CCNA_00172 0.27 +0.3 186,847 + CCNA_00172 0.27 -0.5 186,856 - CCNA_00172 0.28 -0.9 186,861 + CCNA_00172 0.28 +0.1 186,861 + CCNA_00172 0.28 -2.2 186,869 - CCNA_00172 0.28 -0.5 186,891 + CCNA_00172 0.29 -0.6 186,891 + CCNA_00172 0.29 -0.2 186,896 + CCNA_00172 0.30 -1.8 186,899 - CCNA_00172 0.30 -0.2 186,904 - CCNA_00172 0.30 -1.3 186,926 + CCNA_00172 0.31 -0.0 186,931 + CCNA_00172 0.31 -0.1 186,931 + CCNA_00172 0.31 -0.9 186,939 - CCNA_00172 0.32 -1.3 186,939 - CCNA_00172 0.32 +0.2 186,939 - CCNA_00172 0.32 -1.3 186,939 - CCNA_00172 0.32 -0.5 186,950 - +2.8 186,965 - CCNA_00172 0.33 +0.2 186,965 - CCNA_00172 0.33 -0.1 187,013 + CCNA_00172 0.35 -0.5 187,021 - CCNA_00172 0.36 +0.0 187,021 - +1.5 187,060 + CCNA_00172 0.37 -0.8 187,066 - CCNA_00172 0.38 -2.0 187,096 + CCNA_00172 0.39 +1.0 187,096 + CCNA_00172 0.39 +0.4 187,111 + CCNA_00172 0.40 -1.8 187,152 + CCNA_00172 0.42 -0.9 187,164 + CCNA_00172 0.42 -0.8 187,172 - CCNA_00172 0.43 -0.8 187,230 + CCNA_00172 0.46 +0.1 187,268 + CCNA_00172 0.48 -0.6
Or see this region's nucleotide sequence