Experiment: SMSA with Ralstonia_antibiotic_mix
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_RS24970 and RPSI07_RS24975 overlap by 7 nucleotides RPSI07_RS24975 and RPSI07_RS11640 are separated by 128 nucleotides RPSI07_RS11640 and RPSI07_RS11645 are separated by 2 nucleotides RPSI07_RS11645 and RPSI07_RS11650 overlap by 4 nucleotides RPSI07_RS11650 and RPSI07_RS11655 are separated by 256 nucleotides
RPSI07_RS24970: RPSI07_RS24970 - hypothetical protein, at 809,805 to 810,077
_RS24970
RPSI07_RS24975: RPSI07_RS24975 - cold-shock protein, at 810,071 to 810,220
_RS24975
RPSI07_RS11640: RPSI07_RS11640 - hypothetical protein, at 810,349 to 810,657
_RS11640
RPSI07_RS11645: RPSI07_RS11645 - hypothetical protein, at 810,660 to 810,848
_RS11645
RPSI07_RS11650: RPSI07_RS11650 - UDP-glucuronosyltransferase, at 810,845 to 812,035
_RS11650
RPSI07_RS11655: RPSI07_RS11655 - glycosyl transferase family 1, at 812,292 to 813,626
_RS11655
Position (kb) 810
811
812
813 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3
4 at 809.847 kb on + strand, within RPSI07_RS24970 at 809.847 kb on + strand, within RPSI07_RS24970 at 809.847 kb on + strand, within RPSI07_RS24970 at 809.848 kb on - strand, within RPSI07_RS24970 at 809.848 kb on - strand, within RPSI07_RS24970 at 809.848 kb on - strand, within RPSI07_RS24970 at 809.848 kb on - strand, within RPSI07_RS24970 at 809.848 kb on - strand, within RPSI07_RS24970 at 809.848 kb on - strand, within RPSI07_RS24970 at 809.848 kb on - strand, within RPSI07_RS24970 at 809.848 kb on - strand at 809.887 kb on - strand, within RPSI07_RS24970 at 809.910 kb on + strand, within RPSI07_RS24970 at 809.910 kb on + strand, within RPSI07_RS24970 at 809.911 kb on - strand, within RPSI07_RS24970 at 809.912 kb on + strand, within RPSI07_RS24970 at 809.913 kb on - strand, within RPSI07_RS24970 at 809.913 kb on - strand, within RPSI07_RS24970 at 809.943 kb on - strand, within RPSI07_RS24970 at 809.974 kb on - strand, within RPSI07_RS24970 at 810.164 kb on + strand, within RPSI07_RS24975 at 810.164 kb on + strand, within RPSI07_RS24975 at 810.164 kb on + strand, within RPSI07_RS24975 at 810.164 kb on + strand, within RPSI07_RS24975 at 810.164 kb on + strand, within RPSI07_RS24975 at 810.164 kb on + strand, within RPSI07_RS24975 at 810.165 kb on - strand, within RPSI07_RS24975 at 810.165 kb on - strand, within RPSI07_RS24975 at 810.290 kb on - strand at 810.302 kb on + strand at 810.303 kb on - strand at 810.310 kb on - strand at 810.320 kb on + strand at 810.320 kb on + strand at 810.321 kb on - strand at 810.321 kb on - strand at 810.323 kb on + strand at 810.323 kb on + strand at 810.324 kb on - strand at 810.324 kb on - strand at 810.343 kb on + strand at 810.343 kb on + strand at 810.344 kb on - strand at 810.370 kb on + strand at 810.370 kb on + strand at 810.370 kb on + strand at 810.370 kb on + strand at 810.370 kb on + strand at 810.370 kb on + strand at 810.371 kb on - strand at 810.371 kb on - strand at 810.371 kb on - strand at 810.371 kb on - strand at 810.371 kb on - strand at 810.371 kb on - strand at 810.371 kb on - strand at 810.371 kb on - strand at 810.371 kb on - strand at 810.397 kb on + strand, within RPSI07_RS11640 at 810.397 kb on + strand, within RPSI07_RS11640 at 810.398 kb on - strand, within RPSI07_RS11640 at 810.449 kb on + strand, within RPSI07_RS11640 at 810.449 kb on + strand, within RPSI07_RS11640 at 810.449 kb on + strand, within RPSI07_RS11640 at 810.449 kb on + strand, within RPSI07_RS11640 at 810.449 kb on + strand, within RPSI07_RS11640 at 810.449 kb on + strand, within RPSI07_RS11640 at 810.450 kb on - strand, within RPSI07_RS11640 at 810.450 kb on - strand, within RPSI07_RS11640 at 810.450 kb on - strand, within RPSI07_RS11640 at 810.450 kb on - strand, within RPSI07_RS11640 at 810.450 kb on - strand, within RPSI07_RS11640 at 810.478 kb on + strand, within RPSI07_RS11640 at 810.478 kb on + strand, within RPSI07_RS11640 at 810.478 kb on + strand, within RPSI07_RS11640 at 810.478 kb on + strand, within RPSI07_RS11640 at 810.478 kb on + strand, within RPSI07_RS11640 at 810.478 kb on + strand, within RPSI07_RS11640 at 810.479 kb on - strand, within RPSI07_RS11640 at 810.479 kb on - strand, within RPSI07_RS11640 at 810.479 kb on - strand, within RPSI07_RS11640 at 810.479 kb on - strand, within RPSI07_RS11640 at 810.570 kb on + strand, within RPSI07_RS11640 at 810.655 kb on + strand at 810.655 kb on + strand at 810.655 kb on + strand at 810.676 kb on + strand at 810.677 kb on - strand at 810.677 kb on - strand at 810.847 kb on - strand at 810.847 kb on - strand at 810.875 kb on + strand at 810.875 kb on + strand at 810.876 kb on - strand at 810.907 kb on - strand at 810.916 kb on - strand at 811.163 kb on + strand, within RPSI07_RS11650 at 811.163 kb on + strand, within RPSI07_RS11650 at 811.163 kb on + strand, within RPSI07_RS11650 at 811.164 kb on - strand, within RPSI07_RS11650 at 811.326 kb on + strand, within RPSI07_RS11650 at 811.404 kb on + strand, within RPSI07_RS11650 at 811.404 kb on + strand, within RPSI07_RS11650 at 811.404 kb on + strand, within RPSI07_RS11650 at 811.405 kb on - strand, within RPSI07_RS11650 at 811.405 kb on - strand, within RPSI07_RS11650 at 811.405 kb on - strand, within RPSI07_RS11650 at 811.512 kb on + strand, within RPSI07_RS11650 at 811.513 kb on - strand, within RPSI07_RS11650 at 811.788 kb on + strand, within RPSI07_RS11650 at 811.789 kb on - strand, within RPSI07_RS11650 at 811.789 kb on - strand, within RPSI07_RS11650 at 811.793 kb on + strand, within RPSI07_RS11650 at 811.815 kb on + strand, within RPSI07_RS11650 at 811.815 kb on + strand, within RPSI07_RS11650 at 811.816 kb on - strand, within RPSI07_RS11650 at 811.984 kb on + strand at 811.985 kb on - strand at 811.985 kb on - strand at 812.045 kb on - strand at 812.045 kb on - strand at 812.050 kb on + strand at 812.051 kb on - strand at 812.079 kb on - strand at 812.156 kb on + strand at 812.185 kb on + strand at 812.185 kb on + strand at 812.186 kb on - strand at 812.186 kb on - strand at 812.192 kb on + strand at 812.193 kb on - strand at 812.317 kb on - strand at 812.438 kb on + strand, within RPSI07_RS11655 at 812.439 kb on - strand, within RPSI07_RS11655 at 812.449 kb on + strand, within RPSI07_RS11655 at 812.450 kb on - strand, within RPSI07_RS11655 at 812.450 kb on - strand, within RPSI07_RS11655 at 812.524 kb on + strand, within RPSI07_RS11655 at 812.525 kb on - strand, within RPSI07_RS11655 at 812.525 kb on - strand, within RPSI07_RS11655 at 812.569 kb on - strand, within RPSI07_RS11655 at 812.569 kb on - strand, within RPSI07_RS11655 at 812.569 kb on - strand, within RPSI07_RS11655 at 812.569 kb on - strand, within RPSI07_RS11655 at 812.743 kb on - strand, within RPSI07_RS11655 at 812.743 kb on - strand, within RPSI07_RS11655 at 812.743 kb on - strand, within RPSI07_RS11655 at 812.745 kb on + strand, within RPSI07_RS11655 at 812.745 kb on + strand, within RPSI07_RS11655 at 812.745 kb on + strand, within RPSI07_RS11655 at 812.746 kb on - strand, within RPSI07_RS11655 at 812.746 kb on - strand, within RPSI07_RS11655 at 812.748 kb on + strand, within RPSI07_RS11655 at 812.749 kb on - strand, within RPSI07_RS11655 at 812.749 kb on - strand, within RPSI07_RS11655 at 812.913 kb on + strand, within RPSI07_RS11655
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix remove 809,847 + RPSI07_RS24970 0.15 -0.0 809,847 + RPSI07_RS24970 0.15 +1.9 809,847 + RPSI07_RS24970 0.15 +0.4 809,848 - RPSI07_RS24970 0.16 +0.5 809,848 - RPSI07_RS24970 0.16 +0.7 809,848 - RPSI07_RS24970 0.16 +0.6 809,848 - RPSI07_RS24970 0.16 +2.5 809,848 - RPSI07_RS24970 0.16 -0.6 809,848 - RPSI07_RS24970 0.16 -0.3 809,848 - RPSI07_RS24970 0.16 -1.8 809,848 - -2.0 809,887 - RPSI07_RS24970 0.30 -0.5 809,910 + RPSI07_RS24970 0.38 -0.8 809,910 + RPSI07_RS24970 0.38 +0.9 809,911 - RPSI07_RS24970 0.39 -1.8 809,912 + RPSI07_RS24970 0.39 +0.6 809,913 - RPSI07_RS24970 0.40 -0.3 809,913 - RPSI07_RS24970 0.40 +0.2 809,943 - RPSI07_RS24970 0.51 -4.6 809,974 - RPSI07_RS24970 0.62 -0.9 810,164 + RPSI07_RS24975 0.62 +0.6 810,164 + RPSI07_RS24975 0.62 -0.8 810,164 + RPSI07_RS24975 0.62 +0.5 810,164 + RPSI07_RS24975 0.62 +0.6 810,164 + RPSI07_RS24975 0.62 +0.1 810,164 + RPSI07_RS24975 0.62 -2.2 810,165 - RPSI07_RS24975 0.63 -1.7 810,165 - RPSI07_RS24975 0.63 -0.7 810,290 - +1.1 810,302 + -0.7 810,303 - -0.8 810,310 - -1.1 810,320 + -2.7 810,320 + +0.9 810,321 - +1.9 810,321 - +0.9 810,323 + -0.2 810,323 + -0.1 810,324 - +1.3 810,324 - +1.4 810,343 + -1.0 810,343 + +1.1 810,344 - -1.7 810,370 + -0.1 810,370 + +1.2 810,370 + -0.4 810,370 + -0.1 810,370 + -1.2 810,370 + -0.4 810,371 - -1.7 810,371 - -0.5 810,371 - -1.1 810,371 - +0.3 810,371 - -1.7 810,371 - -0.1 810,371 - +0.9 810,371 - -0.9 810,371 - -1.1 810,397 + RPSI07_RS11640 0.16 -0.5 810,397 + RPSI07_RS11640 0.16 +0.9 810,398 - RPSI07_RS11640 0.16 -0.1 810,449 + RPSI07_RS11640 0.32 -0.8 810,449 + RPSI07_RS11640 0.32 -1.7 810,449 + RPSI07_RS11640 0.32 -1.4 810,449 + RPSI07_RS11640 0.32 -0.7 810,449 + RPSI07_RS11640 0.32 -1.1 810,449 + RPSI07_RS11640 0.32 +0.4 810,450 - RPSI07_RS11640 0.33 +1.5 810,450 - RPSI07_RS11640 0.33 +2.2 810,450 - RPSI07_RS11640 0.33 +0.4 810,450 - RPSI07_RS11640 0.33 +0.5 810,450 - RPSI07_RS11640 0.33 -0.7 810,478 + RPSI07_RS11640 0.42 -1.3 810,478 + RPSI07_RS11640 0.42 +2.9 810,478 + RPSI07_RS11640 0.42 -1.4 810,478 + RPSI07_RS11640 0.42 -1.7 810,478 + RPSI07_RS11640 0.42 -0.8 810,478 + RPSI07_RS11640 0.42 -0.0 810,479 - RPSI07_RS11640 0.42 +1.3 810,479 - RPSI07_RS11640 0.42 -1.1 810,479 - RPSI07_RS11640 0.42 +3.5 810,479 - RPSI07_RS11640 0.42 -1.8 810,570 + RPSI07_RS11640 0.72 -0.6 810,655 + -2.4 810,655 + +0.8 810,655 + -0.2 810,676 + -1.9 810,677 - +4.5 810,677 - -1.9 810,847 - -4.1 810,847 - -0.7 810,875 + -0.2 810,875 + +1.1 810,876 - +0.9 810,907 - -1.3 810,916 - +0.4 811,163 + RPSI07_RS11650 0.27 +0.3 811,163 + RPSI07_RS11650 0.27 -0.7 811,163 + RPSI07_RS11650 0.27 +0.6 811,164 - RPSI07_RS11650 0.27 +0.1 811,326 + RPSI07_RS11650 0.40 -1.4 811,404 + RPSI07_RS11650 0.47 +0.9 811,404 + RPSI07_RS11650 0.47 -1.6 811,404 + RPSI07_RS11650 0.47 +0.6 811,405 - RPSI07_RS11650 0.47 -1.4 811,405 - RPSI07_RS11650 0.47 -0.5 811,405 - RPSI07_RS11650 0.47 -1.1 811,512 + RPSI07_RS11650 0.56 -1.2 811,513 - RPSI07_RS11650 0.56 -1.7 811,788 + RPSI07_RS11650 0.79 +1.5 811,789 - RPSI07_RS11650 0.79 +0.1 811,789 - RPSI07_RS11650 0.79 +0.7 811,793 + RPSI07_RS11650 0.80 -0.6 811,815 + RPSI07_RS11650 0.81 -0.1 811,815 + RPSI07_RS11650 0.81 -0.5 811,816 - RPSI07_RS11650 0.82 +0.1 811,984 + +0.2 811,985 - +0.4 811,985 - -0.5 812,045 - -0.1 812,045 - +0.3 812,050 + +0.5 812,051 - +0.0 812,079 - -2.1 812,156 + -0.8 812,185 + -0.8 812,185 + -0.8 812,186 - -0.5 812,186 - +0.6 812,192 + +1.5 812,193 - +0.9 812,317 - +0.9 812,438 + RPSI07_RS11655 0.11 -0.5 812,439 - RPSI07_RS11655 0.11 -0.1 812,449 + RPSI07_RS11655 0.12 -0.4 812,450 - RPSI07_RS11655 0.12 -0.1 812,450 - RPSI07_RS11655 0.12 -1.5 812,524 + RPSI07_RS11655 0.17 -0.5 812,525 - RPSI07_RS11655 0.17 -0.1 812,525 - RPSI07_RS11655 0.17 -0.1 812,569 - RPSI07_RS11655 0.21 -0.9 812,569 - RPSI07_RS11655 0.21 +0.7 812,569 - RPSI07_RS11655 0.21 -1.7 812,569 - RPSI07_RS11655 0.21 -0.7 812,743 - RPSI07_RS11655 0.34 +1.1 812,743 - RPSI07_RS11655 0.34 +0.1 812,743 - RPSI07_RS11655 0.34 +0.0 812,745 + RPSI07_RS11655 0.34 -1.1 812,745 + RPSI07_RS11655 0.34 +0.2 812,745 + RPSI07_RS11655 0.34 +0.9 812,746 - RPSI07_RS11655 0.34 -1.6 812,746 - RPSI07_RS11655 0.34 -1.4 812,748 + RPSI07_RS11655 0.34 +0.2 812,749 - RPSI07_RS11655 0.34 +1.3 812,749 - RPSI07_RS11655 0.34 -1.0 812,913 + RPSI07_RS11655 0.47 +0.9
Or see this region's nucleotide sequence