Experiment: SMSA with Ralstonia_antibiotic_mix_minus_CrystalViolet
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 RPSI07_RS12425 and RPSI07_RS12430 are separated by 178 nucleotides RPSI07_RS12430 and RPSI07_RS12435 are separated by 14 nucleotides RPSI07_RS12435 and RPSI07_RS12440 are separated by 94 nucleotides
RPSI07_RS12425: RPSI07_RS12425 - NADP-dependent isocitrate dehydrogenase, at 981,281 to 982,531
_RS12425
RPSI07_RS12430: RPSI07_RS12430 - DUF4102 domain-containing protein, at 982,710 to 983,957
_RS12430
RPSI07_RS12435: RPSI07_RS12435 - hypothetical protein, at 983,972 to 984,442
_RS12435
RPSI07_RS12440: RPSI07_RS12440 - hypothetical protein, at 984,537 to 985,241
_RS12440
Position (kb) 982
983
984 Strain fitness (log2 ratio) -2
-1
0
1
2
3
4 at 982.525 kb on + strand at 982.525 kb on + strand at 982.526 kb on - strand at 982.530 kb on - strand at 982.573 kb on + strand at 982.621 kb on + strand at 982.650 kb on - strand at 982.673 kb on + strand at 982.673 kb on + strand at 982.674 kb on - strand at 982.725 kb on + strand at 982.725 kb on + strand at 982.726 kb on - strand at 982.726 kb on - strand at 982.726 kb on - strand at 982.726 kb on - strand at 982.842 kb on + strand, within RPSI07_RS12430 at 982.842 kb on + strand, within RPSI07_RS12430 at 982.842 kb on + strand, within RPSI07_RS12430 at 982.842 kb on + strand, within RPSI07_RS12430 at 982.843 kb on - strand, within RPSI07_RS12430 at 982.843 kb on - strand, within RPSI07_RS12430 at 982.848 kb on + strand, within RPSI07_RS12430 at 983.132 kb on - strand, within RPSI07_RS12430 at 983.192 kb on + strand, within RPSI07_RS12430 at 983.193 kb on - strand, within RPSI07_RS12430 at 983.220 kb on - strand, within RPSI07_RS12430 at 983.256 kb on + strand, within RPSI07_RS12430 at 983.256 kb on + strand, within RPSI07_RS12430 at 983.257 kb on - strand, within RPSI07_RS12430 at 983.257 kb on - strand, within RPSI07_RS12430 at 983.262 kb on + strand, within RPSI07_RS12430 at 983.262 kb on + strand, within RPSI07_RS12430 at 983.262 kb on + strand, within RPSI07_RS12430 at 983.263 kb on - strand, within RPSI07_RS12430 at 983.263 kb on - strand, within RPSI07_RS12430 at 983.284 kb on + strand, within RPSI07_RS12430 at 983.284 kb on + strand, within RPSI07_RS12430 at 983.284 kb on + strand, within RPSI07_RS12430 at 983.285 kb on - strand, within RPSI07_RS12430 at 983.285 kb on - strand, within RPSI07_RS12430 at 983.291 kb on + strand, within RPSI07_RS12430 at 983.291 kb on + strand, within RPSI07_RS12430 at 983.292 kb on - strand, within RPSI07_RS12430 at 983.292 kb on - strand, within RPSI07_RS12430 at 983.442 kb on + strand, within RPSI07_RS12430 at 983.442 kb on + strand, within RPSI07_RS12430 at 983.442 kb on + strand, within RPSI07_RS12430 at 983.442 kb on + strand, within RPSI07_RS12430 at 983.443 kb on - strand, within RPSI07_RS12430 at 983.443 kb on - strand, within RPSI07_RS12430 at 983.443 kb on - strand, within RPSI07_RS12430 at 983.443 kb on - strand, within RPSI07_RS12430 at 983.443 kb on - strand, within RPSI07_RS12430 at 983.443 kb on - strand, within RPSI07_RS12430 at 983.456 kb on + strand, within RPSI07_RS12430 at 983.456 kb on + strand, within RPSI07_RS12430 at 983.456 kb on + strand, within RPSI07_RS12430 at 983.457 kb on - strand, within RPSI07_RS12430 at 983.457 kb on - strand, within RPSI07_RS12430 at 983.559 kb on + strand, within RPSI07_RS12430 at 983.560 kb on - strand, within RPSI07_RS12430 at 983.560 kb on - strand, within RPSI07_RS12430 at 983.560 kb on - strand, within RPSI07_RS12430 at 983.560 kb on - strand, within RPSI07_RS12430 at 983.616 kb on + strand, within RPSI07_RS12430 at 983.617 kb on - strand, within RPSI07_RS12430 at 983.622 kb on + strand, within RPSI07_RS12430 at 983.622 kb on + strand, within RPSI07_RS12430 at 983.622 kb on + strand, within RPSI07_RS12430 at 983.622 kb on + strand, within RPSI07_RS12430 at 983.623 kb on - strand, within RPSI07_RS12430 at 983.623 kb on - strand, within RPSI07_RS12430 at 983.623 kb on - strand, within RPSI07_RS12430 at 983.623 kb on - strand, within RPSI07_RS12430 at 983.623 kb on - strand, within RPSI07_RS12430 at 983.623 kb on - strand, within RPSI07_RS12430 at 983.623 kb on - strand, within RPSI07_RS12430 at 983.623 kb on - strand, within RPSI07_RS12430 at 983.623 kb on - strand, within RPSI07_RS12430 at 983.755 kb on + strand, within RPSI07_RS12430 at 983.832 kb on + strand, within RPSI07_RS12430 at 983.832 kb on + strand, within RPSI07_RS12430 at 983.832 kb on + strand, within RPSI07_RS12430 at 983.832 kb on + strand, within RPSI07_RS12430 at 983.832 kb on + strand, within RPSI07_RS12430 at 983.832 kb on + strand, within RPSI07_RS12430 at 983.833 kb on - strand at 983.833 kb on - strand at 983.833 kb on - strand at 983.833 kb on - strand at 983.833 kb on - strand at 983.848 kb on + strand at 983.878 kb on - strand at 983.909 kb on + strand at 983.946 kb on - strand at 983.946 kb on - strand at 983.966 kb on + strand at 983.966 kb on + strand at 983.967 kb on - strand at 983.967 kb on - strand at 983.967 kb on - strand at 983.967 kb on - strand at 983.975 kb on + strand at 983.975 kb on + strand at 983.975 kb on + strand at 983.975 kb on + strand at 983.975 kb on + strand at 983.975 kb on + strand at 983.975 kb on + strand at 983.975 kb on + strand at 983.976 kb on - strand at 983.976 kb on - strand at 983.976 kb on - strand at 983.976 kb on - strand at 983.976 kb on - strand at 983.976 kb on - strand at 983.976 kb on - strand at 983.981 kb on + strand at 983.981 kb on + strand at 983.981 kb on + strand at 983.981 kb on + strand at 983.981 kb on + strand at 983.982 kb on - strand at 983.982 kb on - strand at 983.982 kb on - strand at 984.031 kb on + strand, within RPSI07_RS12435 at 984.044 kb on + strand, within RPSI07_RS12435 at 984.044 kb on + strand, within RPSI07_RS12435 at 984.045 kb on - strand, within RPSI07_RS12435 at 984.056 kb on - strand, within RPSI07_RS12435 at 984.126 kb on + strand, within RPSI07_RS12435 at 984.126 kb on + strand, within RPSI07_RS12435 at 984.127 kb on - strand, within RPSI07_RS12435 at 984.127 kb on - strand, within RPSI07_RS12435 at 984.146 kb on + strand, within RPSI07_RS12435 at 984.281 kb on + strand, within RPSI07_RS12435 at 984.281 kb on + strand, within RPSI07_RS12435 at 984.411 kb on + strand at 984.411 kb on + strand at 984.412 kb on - strand at 984.412 kb on - strand at 984.412 kb on - strand at 984.412 kb on - strand at 984.412 kb on - strand at 984.460 kb on - strand at 984.514 kb on + strand at 984.515 kb on - strand at 984.515 kb on - strand at 984.515 kb on - strand at 984.527 kb on + strand at 984.528 kb on - strand at 984.528 kb on - strand at 984.528 kb on - strand at 984.528 kb on - strand at 984.565 kb on - strand at 984.565 kb on - strand at 984.565 kb on - strand at 984.565 kb on - strand at 984.565 kb on - strand at 984.565 kb on - strand at 984.620 kb on + strand, within RPSI07_RS12440 at 984.620 kb on + strand, within RPSI07_RS12440 at 984.620 kb on + strand, within RPSI07_RS12440 at 984.620 kb on + strand, within RPSI07_RS12440 at 984.620 kb on + strand, within RPSI07_RS12440 at 984.621 kb on - strand, within RPSI07_RS12440 at 984.621 kb on - strand, within RPSI07_RS12440 at 984.621 kb on - strand, within RPSI07_RS12440 at 984.627 kb on + strand, within RPSI07_RS12440 at 984.628 kb on - strand, within RPSI07_RS12440 at 984.628 kb on - strand, within RPSI07_RS12440 at 984.669 kb on - strand, within RPSI07_RS12440 at 984.761 kb on + strand, within RPSI07_RS12440 at 984.761 kb on + strand, within RPSI07_RS12440 at 984.799 kb on + strand, within RPSI07_RS12440 at 984.799 kb on + strand, within RPSI07_RS12440 at 984.843 kb on + strand, within RPSI07_RS12440 at 984.843 kb on + strand, within RPSI07_RS12440 at 984.844 kb on - strand, within RPSI07_RS12440 at 984.954 kb on + strand, within RPSI07_RS12440 at 984.954 kb on + strand, within RPSI07_RS12440 at 984.955 kb on - strand, within RPSI07_RS12440 at 984.955 kb on - strand, within RPSI07_RS12440 at 984.955 kb on - strand, within RPSI07_RS12440 at 984.955 kb on - strand, within RPSI07_RS12440
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix_minus_CrystalViolet remove 982,525 + -2.7 982,525 + +1.7 982,526 - +0.1 982,530 - -0.9 982,573 + -2.2 982,621 + +0.1 982,650 - +0.5 982,673 + -0.7 982,673 + +0.6 982,674 - -1.0 982,725 + +0.9 982,725 + -0.3 982,726 - -1.9 982,726 - -0.7 982,726 - -0.7 982,726 - +0.2 982,842 + RPSI07_RS12430 0.11 +2.7 982,842 + RPSI07_RS12430 0.11 -0.2 982,842 + RPSI07_RS12430 0.11 -1.6 982,842 + RPSI07_RS12430 0.11 -0.5 982,843 - RPSI07_RS12430 0.11 +1.0 982,843 - RPSI07_RS12430 0.11 +1.3 982,848 + RPSI07_RS12430 0.11 +1.7 983,132 - RPSI07_RS12430 0.34 -0.3 983,192 + RPSI07_RS12430 0.39 -2.1 983,193 - RPSI07_RS12430 0.39 +1.1 983,220 - RPSI07_RS12430 0.41 -1.2 983,256 + RPSI07_RS12430 0.44 -0.8 983,256 + RPSI07_RS12430 0.44 -1.9 983,257 - RPSI07_RS12430 0.44 -1.0 983,257 - RPSI07_RS12430 0.44 -0.9 983,262 + RPSI07_RS12430 0.44 -0.8 983,262 + RPSI07_RS12430 0.44 +0.4 983,262 + RPSI07_RS12430 0.44 +1.1 983,263 - RPSI07_RS12430 0.44 -1.2 983,263 - RPSI07_RS12430 0.44 +0.7 983,284 + RPSI07_RS12430 0.46 -1.5 983,284 + RPSI07_RS12430 0.46 -1.1 983,284 + RPSI07_RS12430 0.46 +1.3 983,285 - RPSI07_RS12430 0.46 -0.4 983,285 - RPSI07_RS12430 0.46 -0.1 983,291 + RPSI07_RS12430 0.47 -0.0 983,291 + RPSI07_RS12430 0.47 +0.3 983,292 - RPSI07_RS12430 0.47 -1.1 983,292 - RPSI07_RS12430 0.47 -1.6 983,442 + RPSI07_RS12430 0.59 +0.1 983,442 + RPSI07_RS12430 0.59 -0.2 983,442 + RPSI07_RS12430 0.59 +0.4 983,442 + RPSI07_RS12430 0.59 -0.4 983,443 - RPSI07_RS12430 0.59 +1.2 983,443 - RPSI07_RS12430 0.59 -2.5 983,443 - RPSI07_RS12430 0.59 -1.6 983,443 - RPSI07_RS12430 0.59 -0.1 983,443 - RPSI07_RS12430 0.59 +1.7 983,443 - RPSI07_RS12430 0.59 +0.9 983,456 + RPSI07_RS12430 0.60 -0.7 983,456 + RPSI07_RS12430 0.60 +4.3 983,456 + RPSI07_RS12430 0.60 +2.7 983,457 - RPSI07_RS12430 0.60 -1.5 983,457 - RPSI07_RS12430 0.60 +0.3 983,559 + RPSI07_RS12430 0.68 -0.9 983,560 - RPSI07_RS12430 0.68 -1.3 983,560 - RPSI07_RS12430 0.68 +0.1 983,560 - RPSI07_RS12430 0.68 -0.4 983,560 - RPSI07_RS12430 0.68 +0.7 983,616 + RPSI07_RS12430 0.73 -0.9 983,617 - RPSI07_RS12430 0.73 -0.7 983,622 + RPSI07_RS12430 0.73 +0.9 983,622 + RPSI07_RS12430 0.73 -0.0 983,622 + RPSI07_RS12430 0.73 +1.1 983,622 + RPSI07_RS12430 0.73 -0.5 983,623 - RPSI07_RS12430 0.73 -0.7 983,623 - RPSI07_RS12430 0.73 -2.1 983,623 - RPSI07_RS12430 0.73 +2.3 983,623 - RPSI07_RS12430 0.73 +0.7 983,623 - RPSI07_RS12430 0.73 -0.4 983,623 - RPSI07_RS12430 0.73 +0.7 983,623 - RPSI07_RS12430 0.73 -0.7 983,623 - RPSI07_RS12430 0.73 +0.6 983,623 - RPSI07_RS12430 0.73 -1.8 983,755 + RPSI07_RS12430 0.84 -2.3 983,832 + RPSI07_RS12430 0.90 -2.0 983,832 + RPSI07_RS12430 0.90 -0.8 983,832 + RPSI07_RS12430 0.90 -0.1 983,832 + RPSI07_RS12430 0.90 +1.7 983,832 + RPSI07_RS12430 0.90 +0.8 983,832 + RPSI07_RS12430 0.90 +0.6 983,833 - +3.7 983,833 - -1.0 983,833 - -0.5 983,833 - -0.1 983,833 - -1.0 983,848 + +0.4 983,878 - -0.3 983,909 + +0.7 983,946 - -1.8 983,946 - +0.4 983,966 + -0.1 983,966 + +1.1 983,967 - -0.9 983,967 - -1.0 983,967 - -0.6 983,967 - -1.1 983,975 + -2.4 983,975 + +2.1 983,975 + -0.4 983,975 + -1.0 983,975 + +0.7 983,975 + +0.7 983,975 + -0.8 983,975 + -0.3 983,976 - +0.2 983,976 - +0.1 983,976 - +1.5 983,976 - +0.2 983,976 - +1.6 983,976 - +0.2 983,976 - -0.7 983,981 + +1.4 983,981 + -0.8 983,981 + -1.8 983,981 + +0.8 983,981 + -1.9 983,982 - +0.7 983,982 - -0.8 983,982 - +0.0 984,031 + RPSI07_RS12435 0.13 -0.1 984,044 + RPSI07_RS12435 0.15 +1.0 984,044 + RPSI07_RS12435 0.15 -0.3 984,045 - RPSI07_RS12435 0.15 -0.3 984,056 - RPSI07_RS12435 0.18 -0.7 984,126 + RPSI07_RS12435 0.33 -0.9 984,126 + RPSI07_RS12435 0.33 -0.3 984,127 - RPSI07_RS12435 0.33 +0.2 984,127 - RPSI07_RS12435 0.33 -1.6 984,146 + RPSI07_RS12435 0.37 +0.8 984,281 + RPSI07_RS12435 0.66 +1.7 984,281 + RPSI07_RS12435 0.66 +0.7 984,411 + -0.5 984,411 + +0.7 984,412 - -0.8 984,412 - -0.5 984,412 - -1.2 984,412 - -0.8 984,412 - -1.9 984,460 - +0.3 984,514 + +0.7 984,515 - -0.5 984,515 - -0.2 984,515 - +4.5 984,527 + +0.7 984,528 - -1.3 984,528 - -0.7 984,528 - -1.6 984,528 - +1.5 984,565 - -0.7 984,565 - -0.1 984,565 - +1.5 984,565 - -1.1 984,565 - -1.8 984,565 - +1.0 984,620 + RPSI07_RS12440 0.12 +0.0 984,620 + RPSI07_RS12440 0.12 +0.1 984,620 + RPSI07_RS12440 0.12 -0.4 984,620 + RPSI07_RS12440 0.12 -0.1 984,620 + RPSI07_RS12440 0.12 +0.3 984,621 - RPSI07_RS12440 0.12 +0.6 984,621 - RPSI07_RS12440 0.12 +2.1 984,621 - RPSI07_RS12440 0.12 -2.6 984,627 + RPSI07_RS12440 0.13 -0.2 984,628 - RPSI07_RS12440 0.13 -2.1 984,628 - RPSI07_RS12440 0.13 -1.8 984,669 - RPSI07_RS12440 0.19 +1.2 984,761 + RPSI07_RS12440 0.32 -0.4 984,761 + RPSI07_RS12440 0.32 +1.0 984,799 + RPSI07_RS12440 0.37 +0.7 984,799 + RPSI07_RS12440 0.37 -1.1 984,843 + RPSI07_RS12440 0.43 -0.5 984,843 + RPSI07_RS12440 0.43 +0.9 984,844 - RPSI07_RS12440 0.44 -0.3 984,954 + RPSI07_RS12440 0.59 +0.3 984,954 + RPSI07_RS12440 0.59 -1.4 984,955 - RPSI07_RS12440 0.59 +1.0 984,955 - RPSI07_RS12440 0.59 +2.3 984,955 - RPSI07_RS12440 0.59 -0.8 984,955 - RPSI07_RS12440 0.59 +0.7
Or see this region's nucleotide sequence