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_RS08650 and RPSI07_RS08655 are separated by 347 nucleotides RPSI07_RS08655 and RPSI07_RS08660 are separated by 115 nucleotides RPSI07_RS08660 and RPSI07_RS08665 overlap by 23 nucleotides RPSI07_RS08665 and RPSI07_RS08670 are separated by 34 nucleotides
RPSI07_RS08650: RPSI07_RS08650 - glyoxylate carboligase, at 179,413 to 181,188
_RS08650
RPSI07_RS08655: RPSI07_RS08655 - LysR family transcriptional regulator, at 181,536 to 182,447
_RS08655
RPSI07_RS08660: RPSI07_RS08660 - type II toxin-antitoxin system RelE/ParE family toxin, at 182,563 to 182,835
_RS08660
RPSI07_RS08665: RPSI07_RS08665 - XRE family transcriptional regulator, at 182,813 to 183,145
_RS08665
RPSI07_RS08670: RPSI07_RS08670 - DUF1949 domain-containing protein, at 183,180 to 183,767
_RS08670
Position (kb) 181
182
183 Strain fitness (log2 ratio) -5
-4
-3
-2
-1
0
1
2
3
4 at 180.638 kb on + strand, within RPSI07_RS08650 at 180.638 kb on + strand, within RPSI07_RS08650 at 180.638 kb on + strand, within RPSI07_RS08650 at 180.656 kb on + strand, within RPSI07_RS08650 at 180.656 kb on + strand at 180.656 kb on + strand, within RPSI07_RS08650 at 180.657 kb on - strand, within RPSI07_RS08650 at 180.657 kb on - strand, within RPSI07_RS08650 at 180.860 kb on + strand, within RPSI07_RS08650 at 180.860 kb on + strand, within RPSI07_RS08650 at 180.927 kb on - strand, within RPSI07_RS08650 at 180.927 kb on - strand, within RPSI07_RS08650 at 180.927 kb on - strand, within RPSI07_RS08650 at 180.927 kb on - strand, within RPSI07_RS08650 at 181.005 kb on + strand, within RPSI07_RS08650 at 181.005 kb on + strand, within RPSI07_RS08650 at 181.005 kb on + strand, within RPSI07_RS08650 at 181.006 kb on - strand, within RPSI07_RS08650 at 181.006 kb on - strand, within RPSI07_RS08650 at 181.006 kb on - strand, within RPSI07_RS08650 at 181.006 kb on - strand, within RPSI07_RS08650 at 181.006 kb on - strand, within RPSI07_RS08650 at 181.006 kb on - strand, within RPSI07_RS08650 at 181.007 kb on + strand, within RPSI07_RS08650 at 181.007 kb on + strand, within RPSI07_RS08650 at 181.008 kb on - strand, within RPSI07_RS08650 at 181.008 kb on - strand, within RPSI07_RS08650 at 181.089 kb on - strand at 181.089 kb on - strand at 181.089 kb on - strand at 181.414 kb on + strand at 181.415 kb on - strand at 181.415 kb on - strand at 181.950 kb on + strand, within RPSI07_RS08655 at 182.142 kb on + strand, within RPSI07_RS08655 at 182.143 kb on - strand, within RPSI07_RS08655 at 182.316 kb on + strand, within RPSI07_RS08655 at 182.331 kb on + strand, within RPSI07_RS08655 at 182.332 kb on - strand, within RPSI07_RS08655 at 182.332 kb on - strand, within RPSI07_RS08655 at 182.350 kb on - strand, within RPSI07_RS08655 at 182.412 kb on + strand at 182.412 kb on + strand at 182.413 kb on - strand at 182.413 kb on - strand at 182.413 kb on - strand at 182.559 kb on - strand at 182.747 kb on - strand, within RPSI07_RS08660 at 182.747 kb on - strand, within RPSI07_RS08660 at 182.747 kb on - strand, within RPSI07_RS08660 at 182.786 kb on + strand, within RPSI07_RS08660 at 182.787 kb on - strand, within RPSI07_RS08660 at 182.787 kb on - strand, within RPSI07_RS08660 at 182.824 kb on + strand at 182.824 kb on + strand at 182.824 kb on + strand at 182.824 kb on - strand at 182.825 kb on - strand at 182.825 kb on - strand at 182.825 kb on - strand at 182.833 kb on + strand at 182.833 kb on + strand at 182.833 kb on + strand at 182.833 kb on + strand at 182.834 kb on - strand at 182.897 kb on + strand, within RPSI07_RS08665 at 182.897 kb on + strand, within RPSI07_RS08665 at 182.897 kb on + strand, within RPSI07_RS08665 at 182.897 kb on + strand, within RPSI07_RS08665 at 182.898 kb on - strand, within RPSI07_RS08665 at 182.898 kb on - strand, within RPSI07_RS08665 at 183.050 kb on + strand, within RPSI07_RS08665 at 183.051 kb on - strand, within RPSI07_RS08665 at 183.051 kb on - strand, within RPSI07_RS08665 at 183.181 kb on + strand at 183.182 kb on - strand at 183.286 kb on + strand, within RPSI07_RS08670 at 183.286 kb on + strand, within RPSI07_RS08670 at 183.287 kb on - strand, within RPSI07_RS08670 at 183.307 kb on + strand, within RPSI07_RS08670 at 183.308 kb on - strand, within RPSI07_RS08670 at 183.308 kb on - strand, within RPSI07_RS08670 at 183.352 kb on + strand, within RPSI07_RS08670 at 183.352 kb on + strand, within RPSI07_RS08670 at 183.353 kb on - strand, within RPSI07_RS08670 at 183.436 kb on + strand, within RPSI07_RS08670 at 183.437 kb on - strand, within RPSI07_RS08670 at 183.437 kb on - strand, within RPSI07_RS08670
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix remove 180,638 + RPSI07_RS08650 0.69 -0.0 180,638 + RPSI07_RS08650 0.69 +0.9 180,638 + RPSI07_RS08650 0.69 +2.3 180,656 + RPSI07_RS08650 0.70 -1.0 180,656 + -2.5 180,656 + RPSI07_RS08650 0.70 -0.2 180,657 - RPSI07_RS08650 0.70 +0.0 180,657 - RPSI07_RS08650 0.70 -0.5 180,860 + RPSI07_RS08650 0.81 -0.2 180,860 + RPSI07_RS08650 0.81 +0.1 180,927 - RPSI07_RS08650 0.85 +0.4 180,927 - RPSI07_RS08650 0.85 +1.0 180,927 - RPSI07_RS08650 0.85 +0.4 180,927 - RPSI07_RS08650 0.85 +1.0 181,005 + RPSI07_RS08650 0.90 +1.0 181,005 + RPSI07_RS08650 0.90 -1.1 181,005 + RPSI07_RS08650 0.90 +0.2 181,006 - RPSI07_RS08650 0.90 +0.4 181,006 - RPSI07_RS08650 0.90 +2.0 181,006 - RPSI07_RS08650 0.90 +1.0 181,006 - RPSI07_RS08650 0.90 +1.2 181,006 - RPSI07_RS08650 0.90 -0.7 181,006 - RPSI07_RS08650 0.90 -2.9 181,007 + RPSI07_RS08650 0.90 +1.0 181,007 + RPSI07_RS08650 0.90 -0.9 181,008 - RPSI07_RS08650 0.90 -1.3 181,008 - RPSI07_RS08650 0.90 +0.0 181,089 - -2.6 181,089 - -0.4 181,089 - -0.2 181,414 + +0.5 181,415 - -1.0 181,415 - +0.4 181,950 + RPSI07_RS08655 0.45 +1.6 182,142 + RPSI07_RS08655 0.66 -1.0 182,143 - RPSI07_RS08655 0.67 -0.7 182,316 + RPSI07_RS08655 0.86 +0.6 182,331 + RPSI07_RS08655 0.87 -0.0 182,332 - RPSI07_RS08655 0.87 -0.6 182,332 - RPSI07_RS08655 0.87 +4.4 182,350 - RPSI07_RS08655 0.89 +1.0 182,412 + -0.4 182,412 + +0.5 182,413 - -1.0 182,413 - +0.2 182,413 - +1.0 182,559 - +2.0 182,747 - RPSI07_RS08660 0.67 -1.2 182,747 - RPSI07_RS08660 0.67 -0.0 182,747 - RPSI07_RS08660 0.67 -0.2 182,786 + RPSI07_RS08660 0.82 -3.3 182,787 - RPSI07_RS08660 0.82 -0.3 182,787 - RPSI07_RS08660 0.82 -0.8 182,824 + -1.6 182,824 + -0.1 182,824 + -0.2 182,824 - -5.4 182,825 - +1.3 182,825 - +1.0 182,825 - -0.8 182,833 + -0.4 182,833 + -1.7 182,833 + +0.6 182,833 + +1.0 182,834 - +0.1 182,897 + RPSI07_RS08665 0.25 +0.1 182,897 + RPSI07_RS08665 0.25 +1.7 182,897 + RPSI07_RS08665 0.25 -0.8 182,897 + RPSI07_RS08665 0.25 -0.5 182,898 - RPSI07_RS08665 0.26 -1.8 182,898 - RPSI07_RS08665 0.26 +1.6 183,050 + RPSI07_RS08665 0.71 -1.0 183,051 - RPSI07_RS08665 0.71 -1.5 183,051 - RPSI07_RS08665 0.71 +3.3 183,181 + +1.0 183,182 - -1.0 183,286 + RPSI07_RS08670 0.18 -0.0 183,286 + RPSI07_RS08670 0.18 -0.5 183,287 - RPSI07_RS08670 0.18 +0.8 183,307 + RPSI07_RS08670 0.22 +2.0 183,308 - RPSI07_RS08670 0.22 +0.0 183,308 - RPSI07_RS08670 0.22 -1.0 183,352 + RPSI07_RS08670 0.29 -1.5 183,352 + RPSI07_RS08670 0.29 +1.6 183,353 - RPSI07_RS08670 0.29 -1.2 183,436 + RPSI07_RS08670 0.44 -1.0 183,437 - RPSI07_RS08670 0.44 -0.5 183,437 - RPSI07_RS08670 0.44 +0.5
Or see this region's nucleotide sequence