Experiment: SMSA with Ralstonia_antibiotic_mix_minus_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_RS13880 and RPSI07_RS13885 overlap by 8 nucleotides RPSI07_RS13885 and RPSI07_RS13890 are separated by 64 nucleotides RPSI07_RS13890 and RPSI07_RS13895 are separated by 111 nucleotides RPSI07_RS13895 and RPSI07_RS13900 are separated by 17 nucleotides
RPSI07_RS13880: RPSI07_RS13880 - transcription elongation factor GreB, at 1,298,859 to 1,299,422
_RS13880
RPSI07_RS13885: RPSI07_RS13885 - hypothetical protein, at 1,299,415 to 1,299,810
_RS13885
RPSI07_RS13890: RPSI07_RS13890 - hypothetical protein, at 1,299,875 to 1,300,282
_RS13890
RPSI07_RS13895: RPSI07_RS13895 - hypothetical protein, at 1,300,394 to 1,300,699
_RS13895
RPSI07_RS13900: RPSI07_RS13900 - esterase, at 1,300,717 to 1,301,748
_RS13900
Position (kb) 1299
1300
1301 Strain fitness (log2 ratio) -2
-1
0
1
2
3 at 1298.949 kb on + strand, within RPSI07_RS13880 at 1298.949 kb on + strand, within RPSI07_RS13880 at 1298.949 kb on + strand, within RPSI07_RS13880 at 1298.949 kb on + strand, within RPSI07_RS13880 at 1298.950 kb on - strand, within RPSI07_RS13880 at 1298.950 kb on - strand, within RPSI07_RS13880 at 1298.967 kb on + strand, within RPSI07_RS13880 at 1298.967 kb on + strand, within RPSI07_RS13880 at 1298.968 kb on - strand, within RPSI07_RS13880 at 1299.079 kb on - strand, within RPSI07_RS13880 at 1299.084 kb on + strand, within RPSI07_RS13880 at 1299.541 kb on + strand, within RPSI07_RS13885 at 1299.542 kb on - strand, within RPSI07_RS13885 at 1299.542 kb on - strand, within RPSI07_RS13885 at 1299.542 kb on - strand, within RPSI07_RS13885 at 1299.576 kb on - strand, within RPSI07_RS13885 at 1299.673 kb on + strand, within RPSI07_RS13885 at 1299.673 kb on + strand, within RPSI07_RS13885 at 1299.674 kb on - strand, within RPSI07_RS13885 at 1299.679 kb on + strand, within RPSI07_RS13885 at 1299.798 kb on + strand at 1299.808 kb on + strand at 1299.841 kb on + strand at 1299.842 kb on - strand at 1299.842 kb on - strand at 1299.842 kb on - strand at 1300.007 kb on + strand, within RPSI07_RS13890 at 1300.007 kb on + strand, within RPSI07_RS13890 at 1300.007 kb on + strand, within RPSI07_RS13890 at 1300.008 kb on - strand, within RPSI07_RS13890 at 1300.037 kb on + strand, within RPSI07_RS13890 at 1300.037 kb on + strand, within RPSI07_RS13890 at 1300.055 kb on + strand, within RPSI07_RS13890 at 1300.079 kb on + strand, within RPSI07_RS13890 at 1300.427 kb on + strand, within RPSI07_RS13895 at 1300.428 kb on - strand, within RPSI07_RS13895 at 1300.445 kb on + strand, within RPSI07_RS13895 at 1300.445 kb on + strand, within RPSI07_RS13895 at 1300.445 kb on + strand, within RPSI07_RS13895 at 1300.446 kb on - strand, within RPSI07_RS13895 at 1300.697 kb on + strand at 1300.806 kb on - strand at 1300.901 kb on + strand, within RPSI07_RS13900 at 1300.901 kb on + strand, within RPSI07_RS13900 at 1300.902 kb on - strand, within RPSI07_RS13900 at 1300.902 kb on - strand, within RPSI07_RS13900
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix_minus_Chloramphenicol_and_CrystalViolet remove 1,298,949 + RPSI07_RS13880 0.16 +0.6 1,298,949 + RPSI07_RS13880 0.16 -0.3 1,298,949 + RPSI07_RS13880 0.16 +2.6 1,298,949 + RPSI07_RS13880 0.16 +0.4 1,298,950 - RPSI07_RS13880 0.16 +1.7 1,298,950 - RPSI07_RS13880 0.16 -0.2 1,298,967 + RPSI07_RS13880 0.19 +0.2 1,298,967 + RPSI07_RS13880 0.19 +0.0 1,298,968 - RPSI07_RS13880 0.19 -0.7 1,299,079 - RPSI07_RS13880 0.39 -0.3 1,299,084 + RPSI07_RS13880 0.40 +0.5 1,299,541 + RPSI07_RS13885 0.32 -0.3 1,299,542 - RPSI07_RS13885 0.32 -1.4 1,299,542 - RPSI07_RS13885 0.32 -0.3 1,299,542 - RPSI07_RS13885 0.32 +3.2 1,299,576 - RPSI07_RS13885 0.41 +0.8 1,299,673 + RPSI07_RS13885 0.65 +0.1 1,299,673 + RPSI07_RS13885 0.65 +1.0 1,299,674 - RPSI07_RS13885 0.65 +0.5 1,299,679 + RPSI07_RS13885 0.67 -0.2 1,299,798 + +0.3 1,299,808 + -0.2 1,299,841 + +0.6 1,299,842 - +0.7 1,299,842 - +0.2 1,299,842 - +1.3 1,300,007 + RPSI07_RS13890 0.32 -0.6 1,300,007 + RPSI07_RS13890 0.32 -0.7 1,300,007 + RPSI07_RS13890 0.32 -0.3 1,300,008 - RPSI07_RS13890 0.33 +2.1 1,300,037 + RPSI07_RS13890 0.40 -1.9 1,300,037 + RPSI07_RS13890 0.40 -1.4 1,300,055 + RPSI07_RS13890 0.44 +0.2 1,300,079 + RPSI07_RS13890 0.50 +0.3 1,300,427 + RPSI07_RS13895 0.11 +1.6 1,300,428 - RPSI07_RS13895 0.11 -0.4 1,300,445 + RPSI07_RS13895 0.17 +1.0 1,300,445 + RPSI07_RS13895 0.17 +0.7 1,300,445 + RPSI07_RS13895 0.17 -0.3 1,300,446 - RPSI07_RS13895 0.17 +2.0 1,300,697 + +0.1 1,300,806 - -0.5 1,300,901 + RPSI07_RS13900 0.18 +2.8 1,300,901 + RPSI07_RS13900 0.18 +0.0 1,300,902 - RPSI07_RS13900 0.18 -1.8 1,300,902 - RPSI07_RS13900 0.18 -1.1
Or see this region's nucleotide sequence