Experiment: SMSA with Ralstonia_antibiotic_mix_minus_Polymyxin_and_Chloramphenicol_and_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_RS12350 and RPSI07_RS12355 are separated by 150 nucleotides RPSI07_RS12355 and RPSI07_RS12360 are separated by 9 nucleotides RPSI07_RS12360 and RPSI07_RS12365 are separated by 294 nucleotides
RPSI07_RS12350: RPSI07_RS12350 - DNA-3-methyladenine glycosylase 2 family protein, at 965,173 to 966,645
_RS12350
RPSI07_RS12355: RPSI07_RS12355 - KR domain-containing protein, at 966,796 to 967,542
_RS12355
RPSI07_RS12360: RPSI07_RS12360 - flagellin biosynthesis protein FlgM, at 967,552 to 968,439
_RS12360
RPSI07_RS12365: RPSI07_RS12365 - hypothetical protein, at 968,734 to 969,273
_RS12365
Position (kb) 967
968
969 Strain fitness (log2 ratio) -2
-1
0
1
2
3
4 at 966.620 kb on + strand at 966.620 kb on + strand at 966.621 kb on - strand at 966.671 kb on + strand at 966.671 kb on + strand at 966.671 kb on + strand at 966.671 kb on + strand at 966.671 kb on + strand at 966.672 kb on - strand at 966.672 kb on - strand at 966.672 kb on - strand at 966.672 kb on - strand at 966.676 kb on + strand at 966.676 kb on + strand at 966.676 kb on + strand at 966.677 kb on - strand at 966.677 kb on - strand at 966.677 kb on - strand at 966.677 kb on - strand at 966.677 kb on - strand at 966.892 kb on + strand, within RPSI07_RS12355 at 966.893 kb on - strand, within RPSI07_RS12355 at 967.254 kb on + strand, within RPSI07_RS12355 at 967.255 kb on + strand, within RPSI07_RS12355 at 967.255 kb on + strand, within RPSI07_RS12355 at 967.255 kb on + strand, within RPSI07_RS12355 at 967.256 kb on - strand, within RPSI07_RS12355 at 967.256 kb on - strand, within RPSI07_RS12355 at 967.256 kb on - strand, within RPSI07_RS12355 at 967.256 kb on - strand, within RPSI07_RS12355 at 967.265 kb on - strand, within RPSI07_RS12355 at 967.501 kb on + strand at 967.501 kb on + strand at 967.502 kb on - strand at 967.541 kb on - strand at 967.578 kb on + strand at 967.579 kb on - strand at 967.775 kb on + strand, within RPSI07_RS12360 at 967.934 kb on + strand, within RPSI07_RS12360 at 967.935 kb on - strand, within RPSI07_RS12360 at 968.003 kb on + strand, within RPSI07_RS12360 at 968.003 kb on + strand, within RPSI07_RS12360 at 968.004 kb on - strand, within RPSI07_RS12360 at 968.014 kb on - strand, within RPSI07_RS12360 at 968.027 kb on + strand, within RPSI07_RS12360 at 968.028 kb on - strand, within RPSI07_RS12360 at 968.028 kb on - strand, within RPSI07_RS12360 at 968.496 kb on + strand at 968.717 kb on - strand at 968.717 kb on - strand at 968.717 kb on - strand at 968.820 kb on + strand, within RPSI07_RS12365 at 968.935 kb on + strand, within RPSI07_RS12365 at 968.935 kb on + strand, within RPSI07_RS12365 at 968.935 kb on + strand, within RPSI07_RS12365 at 968.935 kb on + strand, within RPSI07_RS12365 at 968.935 kb on + strand, within RPSI07_RS12365 at 968.935 kb on + strand, within RPSI07_RS12365 at 968.936 kb on - strand, within RPSI07_RS12365 at 968.936 kb on - strand, within RPSI07_RS12365 at 968.936 kb on - strand, within RPSI07_RS12365 at 968.969 kb on + strand, within RPSI07_RS12365 at 969.014 kb on + strand, within RPSI07_RS12365 at 969.014 kb on + strand, within RPSI07_RS12365 at 969.014 kb on + strand, within RPSI07_RS12365 at 969.015 kb on - strand, within RPSI07_RS12365 at 969.097 kb on + strand, within RPSI07_RS12365 at 969.195 kb on - strand, within RPSI07_RS12365 at 969.357 kb on + strand
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix_minus_Polymyxin_and_Chloramphenicol_and_CrystalViolet remove 966,620 + -0.8 966,620 + +1.2 966,621 - +2.6 966,671 + +0.5 966,671 + +3.1 966,671 + -0.5 966,671 + +0.6 966,671 + -0.7 966,672 - -0.1 966,672 - -0.4 966,672 - -0.2 966,672 - -0.5 966,676 + +0.5 966,676 + +0.4 966,676 + -0.7 966,677 - -1.4 966,677 - -0.3 966,677 - +1.0 966,677 - +0.7 966,677 - -0.1 966,892 + RPSI07_RS12355 0.13 -0.4 966,893 - RPSI07_RS12355 0.13 -1.5 967,254 + RPSI07_RS12355 0.61 +1.0 967,255 + RPSI07_RS12355 0.61 -0.3 967,255 + RPSI07_RS12355 0.61 -0.0 967,255 + RPSI07_RS12355 0.61 +1.2 967,256 - RPSI07_RS12355 0.62 -0.6 967,256 - RPSI07_RS12355 0.62 +2.3 967,256 - RPSI07_RS12355 0.62 -0.3 967,256 - RPSI07_RS12355 0.62 -0.4 967,265 - RPSI07_RS12355 0.63 -1.4 967,501 + -1.1 967,501 + +0.2 967,502 - -0.6 967,541 - +0.3 967,578 + -0.7 967,579 - -0.7 967,775 + RPSI07_RS12360 0.25 -0.1 967,934 + RPSI07_RS12360 0.43 -1.0 967,935 - RPSI07_RS12360 0.43 -0.4 968,003 + RPSI07_RS12360 0.51 -0.7 968,003 + RPSI07_RS12360 0.51 -0.5 968,004 - RPSI07_RS12360 0.51 -0.4 968,014 - RPSI07_RS12360 0.52 -1.5 968,027 + RPSI07_RS12360 0.53 -1.9 968,028 - RPSI07_RS12360 0.54 +0.1 968,028 - RPSI07_RS12360 0.54 -1.1 968,496 + -1.4 968,717 - -1.3 968,717 - -1.7 968,717 - -0.2 968,820 + RPSI07_RS12365 0.16 +1.9 968,935 + RPSI07_RS12365 0.37 +0.3 968,935 + RPSI07_RS12365 0.37 -0.3 968,935 + RPSI07_RS12365 0.37 +0.7 968,935 + RPSI07_RS12365 0.37 +0.9 968,935 + RPSI07_RS12365 0.37 -0.9 968,935 + RPSI07_RS12365 0.37 +0.3 968,936 - RPSI07_RS12365 0.37 +0.4 968,936 - RPSI07_RS12365 0.37 -0.4 968,936 - RPSI07_RS12365 0.37 -1.1 968,969 + RPSI07_RS12365 0.44 +3.8 969,014 + RPSI07_RS12365 0.52 +2.0 969,014 + RPSI07_RS12365 0.52 -0.6 969,014 + RPSI07_RS12365 0.52 -2.1 969,015 - RPSI07_RS12365 0.52 -0.4 969,097 + RPSI07_RS12365 0.67 +0.1 969,195 - RPSI07_RS12365 0.85 +2.9 969,357 + +1.5
Or see this region's nucleotide sequence