Experiment: SMSA with Ralstonia_antibiotic_mix_minus_Penicillin
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_RS15675 and RPSI07_RS15680 are separated by 25 nucleotides RPSI07_RS15680 and RPSI07_RS15685 are separated by 26 nucleotides RPSI07_RS15685 and RPSI07_RS15690 are separated by 22 nucleotides RPSI07_RS15690 and RPSI07_RS15695 are separated by 364 nucleotides
RPSI07_RS15675: RPSI07_RS15675 - alpha/beta hydrolase, at 1,676,203 to 1,677,072
_RS15675
RPSI07_RS15680: RPSI07_RS15680 - RidA family protein, at 1,677,098 to 1,677,460
_RS15680
RPSI07_RS15685: RPSI07_RS15685 - bifunctional (p)ppGpp synthetase/guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase, at 1,677,487 to 1,679,727
_RS15685
RPSI07_RS15690: RPSI07_RS15690 - tRNA-Val, at 1,679,750 to 1,679,826
_RS15690
RPSI07_RS15695: RPSI07_RS15695 - threonine--tRNA ligase, at 1,680,191 to 1,682,098
_RS15695
Position (kb) 1677
1678
1679
1680 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3 at 1676.520 kb on + strand, within RPSI07_RS15675 at 1676.644 kb on + strand, within RPSI07_RS15675 at 1676.797 kb on + strand, within RPSI07_RS15675 at 1676.797 kb on + strand, within RPSI07_RS15675 at 1676.798 kb on - strand, within RPSI07_RS15675 at 1677.119 kb on + strand at 1677.119 kb on + strand at 1677.120 kb on - strand at 1677.155 kb on + strand, within RPSI07_RS15680 at 1677.155 kb on + strand at 1677.156 kb on - strand, within RPSI07_RS15680 at 1677.156 kb on - strand, within RPSI07_RS15680 at 1677.156 kb on - strand, within RPSI07_RS15680 at 1677.170 kb on + strand, within RPSI07_RS15680 at 1677.171 kb on - strand, within RPSI07_RS15680 at 1677.577 kb on + strand at 1678.039 kb on + strand, within RPSI07_RS15685 at 1678.039 kb on + strand, within RPSI07_RS15685 at 1678.040 kb on - strand, within RPSI07_RS15685 at 1678.040 kb on - strand, within RPSI07_RS15685 at 1678.040 kb on - strand, within RPSI07_RS15685 at 1678.040 kb on - strand, within RPSI07_RS15685 at 1678.126 kb on + strand, within RPSI07_RS15685 at 1678.126 kb on + strand, within RPSI07_RS15685 at 1678.126 kb on + strand, within RPSI07_RS15685 at 1678.126 kb on + strand, within RPSI07_RS15685 at 1678.126 kb on + strand, within RPSI07_RS15685 at 1678.126 kb on + strand, within RPSI07_RS15685 at 1678.126 kb on + strand, within RPSI07_RS15685 at 1678.126 kb on + strand, within RPSI07_RS15685 at 1678.127 kb on - strand, within RPSI07_RS15685 at 1678.127 kb on - strand, within RPSI07_RS15685 at 1678.264 kb on + strand, within RPSI07_RS15685 at 1678.264 kb on + strand, within RPSI07_RS15685 at 1678.264 kb on + strand, within RPSI07_RS15685 at 1678.264 kb on + strand, within RPSI07_RS15685 at 1678.264 kb on + strand, within RPSI07_RS15685 at 1678.265 kb on - strand, within RPSI07_RS15685 at 1678.315 kb on + strand, within RPSI07_RS15685 at 1678.315 kb on + strand, within RPSI07_RS15685 at 1678.315 kb on + strand, within RPSI07_RS15685 at 1678.363 kb on + strand, within RPSI07_RS15685 at 1678.364 kb on - strand, within RPSI07_RS15685 at 1678.423 kb on + strand, within RPSI07_RS15685 at 1678.424 kb on - strand, within RPSI07_RS15685 at 1678.451 kb on - strand, within RPSI07_RS15685 at 1678.588 kb on + strand, within RPSI07_RS15685 at 1678.741 kb on + strand, within RPSI07_RS15685 at 1678.741 kb on + strand, within RPSI07_RS15685 at 1678.741 kb on + strand, within RPSI07_RS15685 at 1678.742 kb on - strand, within RPSI07_RS15685 at 1678.966 kb on + strand, within RPSI07_RS15685 at 1678.967 kb on - strand, within RPSI07_RS15685 at 1678.967 kb on - strand, within RPSI07_RS15685 at 1678.967 kb on - strand, within RPSI07_RS15685 at 1678.967 kb on - strand, within RPSI07_RS15685 at 1678.990 kb on - strand, within RPSI07_RS15685 at 1678.990 kb on - strand, within RPSI07_RS15685 at 1679.146 kb on + strand, within RPSI07_RS15685 at 1679.501 kb on - strand, within RPSI07_RS15685 at 1679.685 kb on - strand at 1679.888 kb on + strand at 1679.898 kb on + strand at 1679.930 kb on + strand
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix_minus_Penicillin remove 1,676,520 + RPSI07_RS15675 0.36 -0.5 1,676,644 + RPSI07_RS15675 0.51 +1.2 1,676,797 + RPSI07_RS15675 0.68 +0.3 1,676,797 + RPSI07_RS15675 0.68 -0.3 1,676,798 - RPSI07_RS15675 0.68 -1.2 1,677,119 + +0.9 1,677,119 + +1.3 1,677,120 - -0.9 1,677,155 + RPSI07_RS15680 0.16 -2.6 1,677,155 + +0.9 1,677,156 - RPSI07_RS15680 0.16 -3.3 1,677,156 - RPSI07_RS15680 0.16 -1.1 1,677,156 - RPSI07_RS15680 0.16 -1.9 1,677,170 + RPSI07_RS15680 0.20 +0.4 1,677,171 - RPSI07_RS15680 0.20 +1.9 1,677,577 + -0.4 1,678,039 + RPSI07_RS15685 0.25 +0.7 1,678,039 + RPSI07_RS15685 0.25 +3.4 1,678,040 - RPSI07_RS15685 0.25 +0.9 1,678,040 - RPSI07_RS15685 0.25 -0.6 1,678,040 - RPSI07_RS15685 0.25 +1.2 1,678,040 - RPSI07_RS15685 0.25 +2.8 1,678,126 + RPSI07_RS15685 0.29 -2.3 1,678,126 + RPSI07_RS15685 0.29 -0.5 1,678,126 + RPSI07_RS15685 0.29 -0.7 1,678,126 + RPSI07_RS15685 0.29 -1.4 1,678,126 + RPSI07_RS15685 0.29 -2.4 1,678,126 + RPSI07_RS15685 0.29 +2.3 1,678,126 + RPSI07_RS15685 0.29 -0.4 1,678,126 + RPSI07_RS15685 0.29 -0.6 1,678,127 - RPSI07_RS15685 0.29 -0.6 1,678,127 - RPSI07_RS15685 0.29 +1.1 1,678,264 + RPSI07_RS15685 0.35 +0.9 1,678,264 + RPSI07_RS15685 0.35 -0.1 1,678,264 + RPSI07_RS15685 0.35 -0.2 1,678,264 + RPSI07_RS15685 0.35 -0.6 1,678,264 + RPSI07_RS15685 0.35 -0.9 1,678,265 - RPSI07_RS15685 0.35 -2.1 1,678,315 + RPSI07_RS15685 0.37 -1.9 1,678,315 + RPSI07_RS15685 0.37 -0.4 1,678,315 + RPSI07_RS15685 0.37 -0.6 1,678,363 + RPSI07_RS15685 0.39 +0.6 1,678,364 - RPSI07_RS15685 0.39 +1.1 1,678,423 + RPSI07_RS15685 0.42 +1.9 1,678,424 - RPSI07_RS15685 0.42 +0.9 1,678,451 - RPSI07_RS15685 0.43 -1.0 1,678,588 + RPSI07_RS15685 0.49 -0.1 1,678,741 + RPSI07_RS15685 0.56 +0.9 1,678,741 + RPSI07_RS15685 0.56 +0.0 1,678,741 + RPSI07_RS15685 0.56 +0.9 1,678,742 - RPSI07_RS15685 0.56 +0.3 1,678,966 + RPSI07_RS15685 0.66 +0.2 1,678,967 - RPSI07_RS15685 0.66 -0.7 1,678,967 - RPSI07_RS15685 0.66 +1.5 1,678,967 - RPSI07_RS15685 0.66 -0.8 1,678,967 - RPSI07_RS15685 0.66 -0.1 1,678,990 - RPSI07_RS15685 0.67 -1.1 1,678,990 - RPSI07_RS15685 0.67 -0.2 1,679,146 + RPSI07_RS15685 0.74 -1.6 1,679,501 - RPSI07_RS15685 0.90 +1.2 1,679,685 - -0.0 1,679,888 + -0.1 1,679,898 + +0.5 1,679,930 + +0.9
Or see this region's nucleotide sequence