Experiment: SMSA with Ralstonia_antibiotic_mix_minus_Triphenyltetrazoliumchloride
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_RS03555 and RPSI07_RS03560 are separated by 66 nucleotides RPSI07_RS03560 and RPSI07_RS03565 are separated by 150 nucleotides
RPSI07_RS03555: RPSI07_RS03555 - NAD(P)-dependent oxidoreductase, at 965,459 to 966,325
_RS03555
RPSI07_RS03560: RPSI07_RS03560 - hypothetical protein, at 966,392 to 970,312
_RS03560
RPSI07_RS03565: RPSI07_RS03565 - hypothetical protein, at 970,463 to 974,269
_RS03565
Position (kb) 966
967
968
969
970
971 Strain fitness (log2 ratio) -2
-1
0
1
2
3
4 at 965.414 kb on + strand at 965.414 kb on + strand at 965.415 kb on - strand at 965.452 kb on + strand at 965.453 kb on - strand at 965.606 kb on + strand, within RPSI07_RS03555 at 965.606 kb on + strand, within RPSI07_RS03555 at 965.607 kb on - strand, within RPSI07_RS03555 at 965.637 kb on - strand, within RPSI07_RS03555 at 965.811 kb on - strand, within RPSI07_RS03555 at 965.811 kb on - strand, within RPSI07_RS03555 at 965.873 kb on + strand, within RPSI07_RS03555 at 965.873 kb on + strand, within RPSI07_RS03555 at 965.873 kb on + strand, within RPSI07_RS03555 at 965.874 kb on - strand, within RPSI07_RS03555 at 965.874 kb on - strand, within RPSI07_RS03555 at 965.874 kb on - strand, within RPSI07_RS03555 at 965.874 kb on - strand, within RPSI07_RS03555 at 965.874 kb on - strand, within RPSI07_RS03555 at 965.876 kb on + strand, within RPSI07_RS03555 at 965.876 kb on + strand, within RPSI07_RS03555 at 965.876 kb on + strand, within RPSI07_RS03555 at 965.877 kb on - strand, within RPSI07_RS03555 at 966.029 kb on + strand, within RPSI07_RS03555 at 966.030 kb on - strand, within RPSI07_RS03555 at 966.030 kb on - strand, within RPSI07_RS03555 at 966.780 kb on + strand at 966.780 kb on + strand at 966.780 kb on + strand at 966.781 kb on - strand at 966.781 kb on - strand at 966.781 kb on - strand at 966.781 kb on - strand at 966.978 kb on + strand, within RPSI07_RS03560 at 966.978 kb on + strand, within RPSI07_RS03560 at 966.978 kb on + strand, within RPSI07_RS03560 at 966.978 kb on + strand, within RPSI07_RS03560 at 966.978 kb on + strand, within RPSI07_RS03560 at 966.979 kb on - strand, within RPSI07_RS03560 at 966.981 kb on + strand, within RPSI07_RS03560 at 966.982 kb on - strand, within RPSI07_RS03560 at 967.101 kb on + strand, within RPSI07_RS03560 at 967.242 kb on + strand, within RPSI07_RS03560 at 967.242 kb on + strand, within RPSI07_RS03560 at 967.242 kb on + strand, within RPSI07_RS03560 at 967.242 kb on + strand, within RPSI07_RS03560 at 967.243 kb on - strand at 967.243 kb on - strand, within RPSI07_RS03560 at 967.243 kb on - strand, within RPSI07_RS03560 at 967.386 kb on + strand, within RPSI07_RS03560 at 967.386 kb on + strand, within RPSI07_RS03560 at 967.386 kb on + strand, within RPSI07_RS03560 at 967.387 kb on - strand, within RPSI07_RS03560 at 967.387 kb on - strand, within RPSI07_RS03560 at 967.387 kb on - strand, within RPSI07_RS03560 at 967.387 kb on - strand, within RPSI07_RS03560 at 967.387 kb on - strand, within RPSI07_RS03560 at 967.387 kb on - strand, within RPSI07_RS03560 at 967.387 kb on - strand, within RPSI07_RS03560 at 967.668 kb on + strand, within RPSI07_RS03560 at 967.668 kb on + strand, within RPSI07_RS03560 at 967.669 kb on - strand, within RPSI07_RS03560 at 967.669 kb on - strand, within RPSI07_RS03560 at 967.897 kb on - strand, within RPSI07_RS03560 at 967.897 kb on - strand, within RPSI07_RS03560 at 967.897 kb on - strand, within RPSI07_RS03560 at 967.914 kb on + strand, within RPSI07_RS03560 at 967.914 kb on + strand, within RPSI07_RS03560 at 967.915 kb on - strand, within RPSI07_RS03560 at 967.947 kb on + strand, within RPSI07_RS03560 at 967.947 kb on + strand, within RPSI07_RS03560 at 967.947 kb on + strand, within RPSI07_RS03560 at 967.947 kb on + strand, within RPSI07_RS03560 at 967.947 kb on + strand, within RPSI07_RS03560 at 967.948 kb on - strand, within RPSI07_RS03560 at 967.948 kb on - strand, within RPSI07_RS03560 at 968.310 kb on + strand, within RPSI07_RS03560 at 968.310 kb on + strand, within RPSI07_RS03560 at 968.310 kb on + strand, within RPSI07_RS03560 at 968.310 kb on + strand, within RPSI07_RS03560 at 968.311 kb on - strand, within RPSI07_RS03560 at 968.311 kb on - strand, within RPSI07_RS03560 at 968.311 kb on - strand, within RPSI07_RS03560 at 968.311 kb on - strand, within RPSI07_RS03560 at 968.311 kb on - strand, within RPSI07_RS03560 at 968.499 kb on + strand, within RPSI07_RS03560 at 968.499 kb on + strand, within RPSI07_RS03560 at 968.500 kb on - strand, within RPSI07_RS03560 at 968.500 kb on - strand, within RPSI07_RS03560 at 968.500 kb on - strand, within RPSI07_RS03560 at 968.501 kb on - strand, within RPSI07_RS03560 at 968.505 kb on + strand, within RPSI07_RS03560 at 968.505 kb on + strand, within RPSI07_RS03560 at 968.505 kb on + strand, within RPSI07_RS03560 at 968.505 kb on + strand, within RPSI07_RS03560 at 968.506 kb on - strand, within RPSI07_RS03560 at 968.506 kb on - strand, within RPSI07_RS03560 at 968.506 kb on - strand, within RPSI07_RS03560 at 968.506 kb on - strand, within RPSI07_RS03560 at 968.506 kb on - strand, within RPSI07_RS03560 at 968.506 kb on - strand, within RPSI07_RS03560 at 968.506 kb on - strand, within RPSI07_RS03560 at 968.506 kb on - strand, within RPSI07_RS03560 at 968.506 kb on - strand, within RPSI07_RS03560 at 968.577 kb on + strand, within RPSI07_RS03560 at 968.577 kb on + strand, within RPSI07_RS03560 at 968.577 kb on + strand, within RPSI07_RS03560 at 968.578 kb on - strand, within RPSI07_RS03560 at 968.578 kb on - strand, within RPSI07_RS03560 at 968.578 kb on - strand, within RPSI07_RS03560 at 968.637 kb on + strand, within RPSI07_RS03560 at 968.637 kb on + strand, within RPSI07_RS03560 at 968.637 kb on + strand, within RPSI07_RS03560 at 968.637 kb on + strand, within RPSI07_RS03560 at 968.637 kb on + strand, within RPSI07_RS03560 at 968.638 kb on - strand, within RPSI07_RS03560 at 968.754 kb on + strand, within RPSI07_RS03560 at 968.755 kb on - strand, within RPSI07_RS03560 at 968.755 kb on - strand, within RPSI07_RS03560 at 968.755 kb on - strand, within RPSI07_RS03560 at 968.755 kb on - strand, within RPSI07_RS03560 at 968.772 kb on + strand, within RPSI07_RS03560 at 968.871 kb on + strand, within RPSI07_RS03560 at 968.872 kb on - strand, within RPSI07_RS03560 at 968.947 kb on - strand, within RPSI07_RS03560 at 968.988 kb on + strand, within RPSI07_RS03560 at 968.988 kb on + strand, within RPSI07_RS03560 at 968.989 kb on - strand, within RPSI07_RS03560 at 969.015 kb on + strand, within RPSI07_RS03560 at 969.016 kb on - strand, within RPSI07_RS03560 at 969.255 kb on + strand, within RPSI07_RS03560 at 969.256 kb on - strand, within RPSI07_RS03560 at 969.256 kb on - strand, within RPSI07_RS03560 at 969.307 kb on - strand, within RPSI07_RS03560 at 969.307 kb on - strand, within RPSI07_RS03560 at 969.341 kb on + strand, within RPSI07_RS03560 at 969.342 kb on - strand, within RPSI07_RS03560 at 969.342 kb on - strand, within RPSI07_RS03560 at 969.381 kb on + strand, within RPSI07_RS03560 at 969.381 kb on + strand, within RPSI07_RS03560 at 969.381 kb on + strand, within RPSI07_RS03560 at 969.381 kb on + strand, within RPSI07_RS03560 at 969.382 kb on - strand, within RPSI07_RS03560 at 969.382 kb on - strand, within RPSI07_RS03560 at 969.483 kb on + strand, within RPSI07_RS03560 at 969.484 kb on - strand, within RPSI07_RS03560 at 969.561 kb on + strand, within RPSI07_RS03560 at 969.561 kb on + strand, within RPSI07_RS03560 at 969.561 kb on + strand, within RPSI07_RS03560 at 969.561 kb on + strand, within RPSI07_RS03560 at 969.561 kb on + strand, within RPSI07_RS03560 at 969.561 kb on + strand, within RPSI07_RS03560 at 969.561 kb on + strand, within RPSI07_RS03560 at 969.562 kb on - strand, within RPSI07_RS03560 at 969.562 kb on - strand, within RPSI07_RS03560 at 969.562 kb on - strand, within RPSI07_RS03560 at 969.562 kb on - strand, within RPSI07_RS03560 at 969.562 kb on - strand, within RPSI07_RS03560 at 969.562 kb on - strand, within RPSI07_RS03560 at 969.562 kb on - strand, within RPSI07_RS03560 at 969.562 kb on - strand, within RPSI07_RS03560 at 969.562 kb on - strand, within RPSI07_RS03560 at 970.300 kb on + strand at 970.300 kb on + strand at 970.300 kb on + strand at 970.301 kb on - strand at 970.301 kb on - strand at 970.348 kb on + strand at 970.349 kb on - strand at 970.385 kb on - strand at 970.464 kb on + strand at 970.480 kb on + strand at 971.076 kb on + strand, within RPSI07_RS03565 at 971.077 kb on - strand, within RPSI07_RS03565 at 971.119 kb on - strand, within RPSI07_RS03565 at 971.131 kb on - strand, within RPSI07_RS03565 at 971.217 kb on + strand, within RPSI07_RS03565 at 971.218 kb on - strand, within RPSI07_RS03565 at 971.218 kb on - strand, within RPSI07_RS03565 at 971.235 kb on + strand, within RPSI07_RS03565 at 971.235 kb on + strand, within RPSI07_RS03565 at 971.235 kb on + strand, within RPSI07_RS03565 at 971.236 kb on - strand, within RPSI07_RS03565 at 971.236 kb on - strand, within RPSI07_RS03565 at 971.236 kb on - strand, within RPSI07_RS03565 at 971.250 kb on + strand, within RPSI07_RS03565 at 971.251 kb on - strand, within RPSI07_RS03565
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix_minus_Triphenyltetrazoliumchloride remove 965,414 + -0.6 965,414 + +0.1 965,415 - -0.2 965,452 + -0.3 965,453 - -1.5 965,606 + RPSI07_RS03555 0.17 -0.1 965,606 + RPSI07_RS03555 0.17 +0.1 965,607 - RPSI07_RS03555 0.17 -0.9 965,637 - RPSI07_RS03555 0.21 -1.4 965,811 - RPSI07_RS03555 0.41 +4.0 965,811 - RPSI07_RS03555 0.41 +1.1 965,873 + RPSI07_RS03555 0.48 -0.3 965,873 + RPSI07_RS03555 0.48 -0.6 965,873 + RPSI07_RS03555 0.48 +2.3 965,874 - RPSI07_RS03555 0.48 -0.3 965,874 - RPSI07_RS03555 0.48 -0.1 965,874 - RPSI07_RS03555 0.48 -0.7 965,874 - RPSI07_RS03555 0.48 -0.2 965,874 - RPSI07_RS03555 0.48 -0.1 965,876 + RPSI07_RS03555 0.48 -0.3 965,876 + RPSI07_RS03555 0.48 -1.9 965,876 + RPSI07_RS03555 0.48 +1.7 965,877 - RPSI07_RS03555 0.48 -1.5 966,029 + RPSI07_RS03555 0.66 -0.9 966,030 - RPSI07_RS03555 0.66 -1.1 966,030 - RPSI07_RS03555 0.66 -2.1 966,780 + -1.7 966,780 + -0.2 966,780 + +0.7 966,781 - -1.6 966,781 - +0.0 966,781 - -0.3 966,781 - +1.1 966,978 + RPSI07_RS03560 0.15 -1.5 966,978 + RPSI07_RS03560 0.15 -2.1 966,978 + RPSI07_RS03560 0.15 -1.0 966,978 + RPSI07_RS03560 0.15 +1.7 966,978 + RPSI07_RS03560 0.15 +1.4 966,979 - RPSI07_RS03560 0.15 -0.6 966,981 + RPSI07_RS03560 0.15 -1.1 966,982 - RPSI07_RS03560 0.15 -0.1 967,101 + RPSI07_RS03560 0.18 -2.1 967,242 + RPSI07_RS03560 0.22 +0.5 967,242 + RPSI07_RS03560 0.22 -1.0 967,242 + RPSI07_RS03560 0.22 +1.3 967,242 + RPSI07_RS03560 0.22 -0.0 967,243 - +1.7 967,243 - RPSI07_RS03560 0.22 -0.9 967,243 - RPSI07_RS03560 0.22 +1.9 967,386 + RPSI07_RS03560 0.25 +0.4 967,386 + RPSI07_RS03560 0.25 +1.5 967,386 + RPSI07_RS03560 0.25 +2.7 967,387 - RPSI07_RS03560 0.25 +0.9 967,387 - RPSI07_RS03560 0.25 -0.0 967,387 - RPSI07_RS03560 0.25 -1.0 967,387 - RPSI07_RS03560 0.25 +0.9 967,387 - RPSI07_RS03560 0.25 +0.7 967,387 - RPSI07_RS03560 0.25 -0.8 967,387 - RPSI07_RS03560 0.25 +2.3 967,668 + RPSI07_RS03560 0.33 +0.2 967,668 + RPSI07_RS03560 0.33 -0.6 967,669 - RPSI07_RS03560 0.33 -0.0 967,669 - RPSI07_RS03560 0.33 +1.0 967,897 - RPSI07_RS03560 0.38 -2.4 967,897 - RPSI07_RS03560 0.38 -1.4 967,897 - RPSI07_RS03560 0.38 -0.8 967,914 + RPSI07_RS03560 0.39 -0.8 967,914 + RPSI07_RS03560 0.39 -0.7 967,915 - RPSI07_RS03560 0.39 -0.4 967,947 + RPSI07_RS03560 0.40 -1.7 967,947 + RPSI07_RS03560 0.40 -0.0 967,947 + RPSI07_RS03560 0.40 +2.4 967,947 + RPSI07_RS03560 0.40 -0.7 967,947 + RPSI07_RS03560 0.40 +0.3 967,948 - RPSI07_RS03560 0.40 +0.6 967,948 - RPSI07_RS03560 0.40 -0.3 968,310 + RPSI07_RS03560 0.49 +4.0 968,310 + RPSI07_RS03560 0.49 +0.1 968,310 + RPSI07_RS03560 0.49 -2.5 968,310 + RPSI07_RS03560 0.49 +3.0 968,311 - RPSI07_RS03560 0.49 -1.1 968,311 - RPSI07_RS03560 0.49 -1.3 968,311 - RPSI07_RS03560 0.49 -0.8 968,311 - RPSI07_RS03560 0.49 -1.4 968,311 - RPSI07_RS03560 0.49 -0.1 968,499 + RPSI07_RS03560 0.54 +1.5 968,499 + RPSI07_RS03560 0.54 +1.7 968,500 - RPSI07_RS03560 0.54 +0.2 968,500 - RPSI07_RS03560 0.54 +0.1 968,500 - RPSI07_RS03560 0.54 -0.7 968,501 - RPSI07_RS03560 0.54 +0.7 968,505 + RPSI07_RS03560 0.54 -0.6 968,505 + RPSI07_RS03560 0.54 -1.0 968,505 + RPSI07_RS03560 0.54 +0.0 968,505 + RPSI07_RS03560 0.54 -0.5 968,506 - RPSI07_RS03560 0.54 -0.4 968,506 - RPSI07_RS03560 0.54 +1.1 968,506 - RPSI07_RS03560 0.54 -0.7 968,506 - RPSI07_RS03560 0.54 -0.9 968,506 - RPSI07_RS03560 0.54 -0.0 968,506 - RPSI07_RS03560 0.54 -0.8 968,506 - RPSI07_RS03560 0.54 +0.4 968,506 - RPSI07_RS03560 0.54 +0.4 968,506 - RPSI07_RS03560 0.54 +0.3 968,577 + RPSI07_RS03560 0.56 -2.0 968,577 + RPSI07_RS03560 0.56 +1.3 968,577 + RPSI07_RS03560 0.56 +0.2 968,578 - RPSI07_RS03560 0.56 +2.2 968,578 - RPSI07_RS03560 0.56 -0.2 968,578 - RPSI07_RS03560 0.56 -0.5 968,637 + RPSI07_RS03560 0.57 -0.4 968,637 + RPSI07_RS03560 0.57 +0.4 968,637 + RPSI07_RS03560 0.57 -1.3 968,637 + RPSI07_RS03560 0.57 -1.7 968,637 + RPSI07_RS03560 0.57 +0.7 968,638 - RPSI07_RS03560 0.57 -0.3 968,754 + RPSI07_RS03560 0.60 +1.4 968,755 - RPSI07_RS03560 0.60 +1.9 968,755 - RPSI07_RS03560 0.60 -0.1 968,755 - RPSI07_RS03560 0.60 +0.3 968,755 - RPSI07_RS03560 0.60 -0.3 968,772 + RPSI07_RS03560 0.61 +0.3 968,871 + RPSI07_RS03560 0.63 -0.8 968,872 - RPSI07_RS03560 0.63 -1.6 968,947 - RPSI07_RS03560 0.65 -0.3 968,988 + RPSI07_RS03560 0.66 -1.0 968,988 + RPSI07_RS03560 0.66 +0.2 968,989 - RPSI07_RS03560 0.66 -0.3 969,015 + RPSI07_RS03560 0.67 -1.5 969,016 - RPSI07_RS03560 0.67 -1.0 969,255 + RPSI07_RS03560 0.73 +1.2 969,256 - RPSI07_RS03560 0.73 +0.7 969,256 - RPSI07_RS03560 0.73 -0.2 969,307 - RPSI07_RS03560 0.74 +1.9 969,307 - RPSI07_RS03560 0.74 -0.8 969,341 + RPSI07_RS03560 0.75 -0.1 969,342 - RPSI07_RS03560 0.75 -1.1 969,342 - RPSI07_RS03560 0.75 +2.7 969,381 + RPSI07_RS03560 0.76 -2.0 969,381 + RPSI07_RS03560 0.76 -1.4 969,381 + RPSI07_RS03560 0.76 +1.0 969,381 + RPSI07_RS03560 0.76 -0.6 969,382 - RPSI07_RS03560 0.76 +0.4 969,382 - RPSI07_RS03560 0.76 -1.8 969,483 + RPSI07_RS03560 0.79 +0.5 969,484 - RPSI07_RS03560 0.79 -0.9 969,561 + RPSI07_RS03560 0.81 +0.8 969,561 + RPSI07_RS03560 0.81 +0.7 969,561 + RPSI07_RS03560 0.81 +0.5 969,561 + RPSI07_RS03560 0.81 -0.4 969,561 + RPSI07_RS03560 0.81 -0.1 969,561 + RPSI07_RS03560 0.81 +0.3 969,561 + RPSI07_RS03560 0.81 -0.3 969,562 - RPSI07_RS03560 0.81 -0.3 969,562 - RPSI07_RS03560 0.81 -0.1 969,562 - RPSI07_RS03560 0.81 +1.1 969,562 - RPSI07_RS03560 0.81 +1.0 969,562 - RPSI07_RS03560 0.81 -2.3 969,562 - RPSI07_RS03560 0.81 -0.3 969,562 - RPSI07_RS03560 0.81 -1.6 969,562 - RPSI07_RS03560 0.81 -1.3 969,562 - RPSI07_RS03560 0.81 +1.7 970,300 + -0.7 970,300 + -1.1 970,300 + -0.5 970,301 - +1.0 970,301 - +0.0 970,348 + -0.2 970,349 - +1.9 970,385 - +0.8 970,464 + +0.1 970,480 + +1.3 971,076 + RPSI07_RS03565 0.16 +0.1 971,077 - RPSI07_RS03565 0.16 -0.6 971,119 - RPSI07_RS03565 0.17 +0.3 971,131 - RPSI07_RS03565 0.18 -0.7 971,217 + RPSI07_RS03565 0.20 -0.4 971,218 - RPSI07_RS03565 0.20 -1.3 971,218 - RPSI07_RS03565 0.20 -0.9 971,235 + RPSI07_RS03565 0.20 +2.7 971,235 + RPSI07_RS03565 0.20 -0.5 971,235 + RPSI07_RS03565 0.20 -0.3 971,236 - RPSI07_RS03565 0.20 -0.7 971,236 - RPSI07_RS03565 0.20 -0.8 971,236 - RPSI07_RS03565 0.20 -0.6 971,250 + RPSI07_RS03565 0.21 -2.3 971,251 - RPSI07_RS03565 0.21 +0.2
Or see this region's nucleotide sequence