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_RS02070 and RPSI07_RS02075 are separated by 1 nucleotides RPSI07_RS02075 and RPSI07_RS24235 are separated by 6 nucleotides
RPSI07_RS02070: RPSI07_RS02070 - hypothetical protein, at 618,409 to 618,705
_RS02070
RPSI07_RS02075: RPSI07_RS02075 - hemagglutinin-related protein (fragment), at 618,707 to 621,655
_RS02075
RPSI07_RS24235: RPSI07_RS24235 - hypothetical protein, at 621,662 to 622,111
_RS24235
Position (kb) 618
619
620
621
622 Strain fitness (log2 ratio) -2
-1
0
1
2
3 at 617.708 kb on + strand at 617.709 kb on + strand at 617.709 kb on + strand at 617.710 kb on - strand at 617.710 kb on - strand at 617.710 kb on - strand at 617.710 kb on - strand at 617.710 kb on - strand at 617.710 kb on - strand at 617.710 kb on - strand at 617.754 kb on - strand at 617.764 kb on - strand at 617.793 kb on - strand at 617.821 kb on + strand at 617.823 kb on - strand at 617.863 kb on - strand at 617.866 kb on + strand at 618.159 kb on + strand at 618.159 kb on + strand at 618.179 kb on + strand at 618.180 kb on - strand at 618.180 kb on - strand at 618.180 kb on - strand at 618.180 kb on - strand at 618.235 kb on + strand at 618.236 kb on - strand at 618.237 kb on + strand at 618.408 kb on + strand at 618.491 kb on + strand, within RPSI07_RS02070 at 618.626 kb on - strand, within RPSI07_RS02070 at 618.683 kb on - strand at 620.264 kb on + strand, within RPSI07_RS02075 at 620.264 kb on + strand, within RPSI07_RS02075 at 620.264 kb on + strand, within RPSI07_RS02075 at 620.264 kb on + strand, within RPSI07_RS02075 at 620.264 kb on + strand, within RPSI07_RS02075 at 620.264 kb on + strand, within RPSI07_RS02075 at 620.264 kb on + strand, within RPSI07_RS02075 at 620.265 kb on - strand, within RPSI07_RS02075 at 620.265 kb on - strand, within RPSI07_RS02075 at 620.265 kb on - strand, within RPSI07_RS02075 at 620.265 kb on - strand, within RPSI07_RS02075 at 620.265 kb on - strand, within RPSI07_RS02075 at 620.304 kb on - strand, within RPSI07_RS02075 at 620.304 kb on - strand, within RPSI07_RS02075 at 620.562 kb on + strand, within RPSI07_RS02075 at 620.564 kb on + strand, within RPSI07_RS02075 at 620.564 kb on + strand, within RPSI07_RS02075 at 620.564 kb on + strand, within RPSI07_RS02075 at 620.565 kb on - strand, within RPSI07_RS02075 at 620.565 kb on - strand, within RPSI07_RS02075 at 620.565 kb on - strand, within RPSI07_RS02075 at 620.691 kb on + strand, within RPSI07_RS02075 at 620.692 kb on - strand, within RPSI07_RS02075 at 620.739 kb on + strand, within RPSI07_RS02075 at 620.740 kb on - strand, within RPSI07_RS02075 at 620.740 kb on - strand, within RPSI07_RS02075 at 620.740 kb on - strand, within RPSI07_RS02075 at 620.740 kb on - strand, within RPSI07_RS02075 at 620.740 kb on - strand, within RPSI07_RS02075 at 620.740 kb on - strand, within RPSI07_RS02075 at 620.798 kb on + strand, within RPSI07_RS02075 at 620.798 kb on + strand, within RPSI07_RS02075 at 620.798 kb on + strand, within RPSI07_RS02075 at 620.798 kb on + strand, within RPSI07_RS02075 at 620.798 kb on + strand, within RPSI07_RS02075 at 620.798 kb on + strand, within RPSI07_RS02075 at 620.799 kb on - strand, within RPSI07_RS02075 at 620.799 kb on - strand, within RPSI07_RS02075 at 620.799 kb on - strand, within RPSI07_RS02075 at 620.799 kb on - strand, within RPSI07_RS02075 at 620.799 kb on - strand, within RPSI07_RS02075 at 620.799 kb on - strand, within RPSI07_RS02075 at 620.843 kb on + strand, within RPSI07_RS02075 at 620.843 kb on + strand, within RPSI07_RS02075 at 620.843 kb on + strand, within RPSI07_RS02075 at 620.843 kb on + strand, within RPSI07_RS02075 at 620.843 kb on + strand, within RPSI07_RS02075 at 620.843 kb on + strand, within RPSI07_RS02075 at 620.844 kb on - strand, within RPSI07_RS02075 at 620.866 kb on + strand, within RPSI07_RS02075 at 620.867 kb on - strand, within RPSI07_RS02075 at 620.871 kb on + strand, within RPSI07_RS02075 at 620.871 kb on + strand, within RPSI07_RS02075 at 620.872 kb on - strand, within RPSI07_RS02075 at 620.882 kb on + strand, within RPSI07_RS02075 at 620.882 kb on + strand, within RPSI07_RS02075 at 620.882 kb on + strand, within RPSI07_RS02075 at 620.882 kb on + strand, within RPSI07_RS02075 at 620.882 kb on + strand, within RPSI07_RS02075 at 620.882 kb on + strand, within RPSI07_RS02075 at 620.882 kb on + strand, within RPSI07_RS02075 at 620.882 kb on + strand, within RPSI07_RS02075 at 620.883 kb on - strand, within RPSI07_RS02075 at 620.883 kb on - strand, within RPSI07_RS02075 at 620.883 kb on - strand, within RPSI07_RS02075 at 620.959 kb on + strand, within RPSI07_RS02075 at 620.960 kb on - strand, within RPSI07_RS02075 at 620.960 kb on - strand, within RPSI07_RS02075 at 620.971 kb on + strand, within RPSI07_RS02075 at 620.971 kb on + strand, within RPSI07_RS02075 at 620.971 kb on + strand, within RPSI07_RS02075 at 620.971 kb on + strand, within RPSI07_RS02075 at 620.972 kb on - strand, within RPSI07_RS02075 at 621.000 kb on + strand, within RPSI07_RS02075 at 621.001 kb on - strand, within RPSI07_RS02075 at 621.001 kb on - strand, within RPSI07_RS02075 at 621.037 kb on + strand, within RPSI07_RS02075 at 621.037 kb on + strand, within RPSI07_RS02075 at 621.038 kb on - strand, within RPSI07_RS02075 at 621.067 kb on + strand, within RPSI07_RS02075 at 621.067 kb on + strand, within RPSI07_RS02075 at 621.068 kb on - strand, within RPSI07_RS02075 at 621.068 kb on - strand, within RPSI07_RS02075 at 621.073 kb on - strand, within RPSI07_RS02075 at 621.329 kb on - strand, within RPSI07_RS02075 at 621.333 kb on + strand, within RPSI07_RS02075 at 621.340 kb on - strand, within RPSI07_RS02075 at 621.614 kb on + strand at 621.619 kb on - strand at 621.653 kb on + strand at 621.789 kb on - strand, within RPSI07_RS24235 at 621.789 kb on - strand, within RPSI07_RS24235 at 621.801 kb on + strand, within RPSI07_RS24235 at 621.802 kb on - strand, within RPSI07_RS24235 at 621.804 kb on - strand, within RPSI07_RS24235 at 621.895 kb on + strand, within RPSI07_RS24235 at 621.895 kb on + strand, within RPSI07_RS24235 at 622.010 kb on + strand, within RPSI07_RS24235 at 622.010 kb on + strand, within RPSI07_RS24235 at 622.011 kb on - strand, within RPSI07_RS24235 at 622.011 kb on - strand, within RPSI07_RS24235 at 622.053 kb on - strand, within RPSI07_RS24235 at 622.067 kb on - strand at 622.099 kb on + strand at 622.100 kb on - strand at 622.109 kb on + strand at 622.117 kb on + strand at 622.146 kb on - strand at 622.194 kb on + strand at 622.217 kb on - strand at 622.218 kb on + strand at 622.219 kb on - strand at 622.252 kb on + strand at 622.252 kb on + strand at 622.279 kb on - strand at 622.330 kb on + strand at 622.428 kb on - strand at 622.431 kb on - strand at 622.464 kb on + strand at 622.526 kb on - strand at 622.530 kb on - strand at 622.556 kb on + strand at 622.556 kb on + strand at 622.582 kb on + strand
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix remove 617,708 + +0.7 617,709 + -0.5 617,709 + +1.0 617,710 - -0.3 617,710 - -1.4 617,710 - -1.0 617,710 - +1.3 617,710 - -0.6 617,710 - -0.9 617,710 - -1.6 617,754 - -0.2 617,764 - +0.3 617,793 - -1.4 617,821 + +0.7 617,823 - +2.7 617,863 - -0.9 617,866 + +0.2 618,159 + +0.7 618,159 + +1.5 618,179 + +1.0 618,180 - +0.1 618,180 - +0.3 618,180 - -0.3 618,180 - +0.5 618,235 + +0.1 618,236 - +2.3 618,237 + +1.1 618,408 + +0.7 618,491 + RPSI07_RS02070 0.28 +0.0 618,626 - RPSI07_RS02070 0.73 +1.9 618,683 - -1.5 620,264 + RPSI07_RS02075 0.53 +0.2 620,264 + RPSI07_RS02075 0.53 -0.3 620,264 + RPSI07_RS02075 0.53 +1.0 620,264 + RPSI07_RS02075 0.53 +1.3 620,264 + RPSI07_RS02075 0.53 -0.8 620,264 + RPSI07_RS02075 0.53 +1.3 620,264 + RPSI07_RS02075 0.53 -0.6 620,265 - RPSI07_RS02075 0.53 -2.0 620,265 - RPSI07_RS02075 0.53 -0.0 620,265 - RPSI07_RS02075 0.53 +0.2 620,265 - RPSI07_RS02075 0.53 +2.1 620,265 - RPSI07_RS02075 0.53 -2.6 620,304 - RPSI07_RS02075 0.54 +2.7 620,304 - RPSI07_RS02075 0.54 -0.0 620,562 + RPSI07_RS02075 0.63 +0.0 620,564 + RPSI07_RS02075 0.63 +0.5 620,564 + RPSI07_RS02075 0.63 -0.6 620,564 + RPSI07_RS02075 0.63 +0.3 620,565 - RPSI07_RS02075 0.63 +0.7 620,565 - RPSI07_RS02075 0.63 +0.7 620,565 - RPSI07_RS02075 0.63 +0.1 620,691 + RPSI07_RS02075 0.67 +0.9 620,692 - RPSI07_RS02075 0.67 -0.7 620,739 + RPSI07_RS02075 0.69 +0.0 620,740 - RPSI07_RS02075 0.69 +0.3 620,740 - RPSI07_RS02075 0.69 -1.5 620,740 - RPSI07_RS02075 0.69 +0.3 620,740 - RPSI07_RS02075 0.69 +0.2 620,740 - RPSI07_RS02075 0.69 +2.5 620,740 - RPSI07_RS02075 0.69 +1.7 620,798 + RPSI07_RS02075 0.71 -0.3 620,798 + RPSI07_RS02075 0.71 +0.6 620,798 + RPSI07_RS02075 0.71 -0.4 620,798 + RPSI07_RS02075 0.71 +0.5 620,798 + RPSI07_RS02075 0.71 -1.3 620,798 + RPSI07_RS02075 0.71 -0.0 620,799 - RPSI07_RS02075 0.71 +2.7 620,799 - RPSI07_RS02075 0.71 -0.4 620,799 - RPSI07_RS02075 0.71 -1.3 620,799 - RPSI07_RS02075 0.71 +2.1 620,799 - RPSI07_RS02075 0.71 -0.4 620,799 - RPSI07_RS02075 0.71 -1.9 620,843 + RPSI07_RS02075 0.72 +0.0 620,843 + RPSI07_RS02075 0.72 +0.1 620,843 + RPSI07_RS02075 0.72 -1.0 620,843 + RPSI07_RS02075 0.72 -0.1 620,843 + RPSI07_RS02075 0.72 +0.5 620,843 + RPSI07_RS02075 0.72 +0.0 620,844 - RPSI07_RS02075 0.72 +0.6 620,866 + RPSI07_RS02075 0.73 +0.4 620,867 - RPSI07_RS02075 0.73 -0.3 620,871 + RPSI07_RS02075 0.73 -1.5 620,871 + RPSI07_RS02075 0.73 -1.6 620,872 - RPSI07_RS02075 0.73 -0.0 620,882 + RPSI07_RS02075 0.74 +0.8 620,882 + RPSI07_RS02075 0.74 +0.7 620,882 + RPSI07_RS02075 0.74 +1.0 620,882 + RPSI07_RS02075 0.74 +0.9 620,882 + RPSI07_RS02075 0.74 +0.6 620,882 + RPSI07_RS02075 0.74 -0.1 620,882 + RPSI07_RS02075 0.74 +1.5 620,882 + RPSI07_RS02075 0.74 +0.9 620,883 - RPSI07_RS02075 0.74 -0.4 620,883 - RPSI07_RS02075 0.74 +0.6 620,883 - RPSI07_RS02075 0.74 +1.4 620,959 + RPSI07_RS02075 0.76 +0.8 620,960 - RPSI07_RS02075 0.76 -0.2 620,960 - RPSI07_RS02075 0.76 +0.1 620,971 + RPSI07_RS02075 0.77 -0.9 620,971 + RPSI07_RS02075 0.77 -0.5 620,971 + RPSI07_RS02075 0.77 -0.8 620,971 + RPSI07_RS02075 0.77 -0.7 620,972 - RPSI07_RS02075 0.77 +0.4 621,000 + RPSI07_RS02075 0.78 -0.4 621,001 - RPSI07_RS02075 0.78 +2.9 621,001 - RPSI07_RS02075 0.78 -0.6 621,037 + RPSI07_RS02075 0.79 -0.5 621,037 + RPSI07_RS02075 0.79 -0.8 621,038 - RPSI07_RS02075 0.79 +0.7 621,067 + RPSI07_RS02075 0.80 -0.6 621,067 + RPSI07_RS02075 0.80 +0.7 621,068 - RPSI07_RS02075 0.80 +0.1 621,068 - RPSI07_RS02075 0.80 -1.4 621,073 - RPSI07_RS02075 0.80 +3.1 621,329 - RPSI07_RS02075 0.89 -1.7 621,333 + RPSI07_RS02075 0.89 +0.3 621,340 - RPSI07_RS02075 0.89 -0.5 621,614 + +0.7 621,619 - +1.9 621,653 + +0.5 621,789 - RPSI07_RS24235 0.28 +1.6 621,789 - RPSI07_RS24235 0.28 -0.9 621,801 + RPSI07_RS24235 0.31 -0.3 621,802 - RPSI07_RS24235 0.31 -1.7 621,804 - RPSI07_RS24235 0.32 +0.4 621,895 + RPSI07_RS24235 0.52 -1.3 621,895 + RPSI07_RS24235 0.52 -0.5 622,010 + RPSI07_RS24235 0.77 +1.5 622,010 + RPSI07_RS24235 0.77 +0.5 622,011 - RPSI07_RS24235 0.78 +0.0 622,011 - RPSI07_RS24235 0.78 -1.2 622,053 - RPSI07_RS24235 0.87 +0.1 622,067 - +1.1 622,099 + +0.6 622,100 - -0.9 622,109 + -1.4 622,117 + -0.1 622,146 - -1.1 622,194 + -0.9 622,217 - -0.9 622,218 + +0.7 622,219 - -1.0 622,252 + -0.1 622,252 + -0.5 622,279 - +0.1 622,330 + -1.5 622,428 - +2.0 622,431 - -0.5 622,464 + -0.5 622,526 - +2.3 622,530 - +1.5 622,556 + -0.5 622,556 + +0.1 622,582 + +0.6
Or see this region's nucleotide sequence