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_RS01340 and RPSI07_RS01345 are separated by 366 nucleotides RPSI07_RS01345 and RPSI07_RS01350 are separated by 68 nucleotides RPSI07_RS01350 and RPSI07_RS24195 are separated by 126 nucleotides RPSI07_RS24195 and RPSI07_RS01355 are separated by 321 nucleotides
RPSI07_RS01340: RPSI07_RS01340 - nucleotidyltransferase family protein, at 369,205 to 369,864
_RS01340
RPSI07_RS01345: RPSI07_RS01345 - hypothetical protein, at 370,231 to 370,434
_RS01345
RPSI07_RS01350: RPSI07_RS01350 - GGDEF domain-containing protein, at 370,503 to 373,190
_RS01350
RPSI07_RS24195: RPSI07_RS24195 - hypothetical protein, at 373,317 to 373,685
_RS24195
RPSI07_RS01355: RPSI07_RS01355 - DNA-binding protein, at 374,007 to 374,297
_RS01355
Position (kb) 370
371
372
373
374 Strain fitness (log2 ratio) -2
-1
0
1
2 at 369.664 kb on + strand, within RPSI07_RS01340 at 369.664 kb on + strand, within RPSI07_RS01340 at 369.665 kb on - strand, within RPSI07_RS01340 at 369.665 kb on - strand, within RPSI07_RS01340 at 369.733 kb on - strand, within RPSI07_RS01340 at 369.759 kb on + strand, within RPSI07_RS01340 at 369.759 kb on + strand, within RPSI07_RS01340 at 369.759 kb on + strand, within RPSI07_RS01340 at 369.790 kb on - strand, within RPSI07_RS01340 at 369.889 kb on + strand at 369.890 kb on - strand at 369.890 kb on - strand at 370.026 kb on + strand at 370.027 kb on - strand at 370.113 kb on + strand at 370.113 kb on + strand at 370.114 kb on - strand at 370.114 kb on - strand at 370.114 kb on - strand at 370.141 kb on + strand at 370.141 kb on + strand at 370.141 kb on + strand at 370.142 kb on - strand at 370.142 kb on - strand at 370.151 kb on + strand at 370.165 kb on - strand at 370.195 kb on + strand at 370.734 kb on - strand at 370.754 kb on + strand at 370.754 kb on + strand at 370.755 kb on - strand at 370.755 kb on - strand at 370.755 kb on - strand at 370.780 kb on + strand, within RPSI07_RS01350 at 370.780 kb on + strand, within RPSI07_RS01350 at 370.781 kb on - strand at 370.995 kb on + strand, within RPSI07_RS01350 at 370.995 kb on + strand, within RPSI07_RS01350 at 370.995 kb on + strand, within RPSI07_RS01350 at 370.996 kb on - strand, within RPSI07_RS01350 at 370.996 kb on - strand, within RPSI07_RS01350 at 370.996 kb on - strand, within RPSI07_RS01350 at 371.093 kb on + strand, within RPSI07_RS01350 at 371.093 kb on + strand, within RPSI07_RS01350 at 371.093 kb on + strand, within RPSI07_RS01350 at 371.094 kb on - strand, within RPSI07_RS01350 at 371.094 kb on - strand, within RPSI07_RS01350 at 371.095 kb on + strand, within RPSI07_RS01350 at 371.095 kb on + strand, within RPSI07_RS01350 at 371.095 kb on + strand, within RPSI07_RS01350 at 371.095 kb on + strand, within RPSI07_RS01350 at 371.096 kb on - strand, within RPSI07_RS01350 at 371.096 kb on - strand at 371.096 kb on - strand, within RPSI07_RS01350 at 371.096 kb on - strand, within RPSI07_RS01350 at 371.209 kb on + strand, within RPSI07_RS01350 at 371.210 kb on - strand, within RPSI07_RS01350 at 371.210 kb on - strand, within RPSI07_RS01350 at 371.210 kb on - strand, within RPSI07_RS01350 at 371.221 kb on + strand, within RPSI07_RS01350 at 371.221 kb on + strand, within RPSI07_RS01350 at 371.222 kb on - strand, within RPSI07_RS01350 at 371.222 kb on - strand, within RPSI07_RS01350 at 371.222 kb on - strand, within RPSI07_RS01350 at 371.222 kb on - strand, within RPSI07_RS01350 at 371.222 kb on - strand, within RPSI07_RS01350 at 371.222 kb on - strand, within RPSI07_RS01350 at 371.222 kb on - strand, within RPSI07_RS01350 at 371.222 kb on - strand, within RPSI07_RS01350 at 371.353 kb on + strand, within RPSI07_RS01350 at 371.354 kb on - strand, within RPSI07_RS01350 at 371.354 kb on - strand, within RPSI07_RS01350 at 371.680 kb on + strand, within RPSI07_RS01350 at 371.680 kb on + strand, within RPSI07_RS01350 at 371.680 kb on + strand, within RPSI07_RS01350 at 371.680 kb on + strand, within RPSI07_RS01350 at 371.680 kb on + strand, within RPSI07_RS01350 at 371.680 kb on + strand, within RPSI07_RS01350 at 371.680 kb on + strand, within RPSI07_RS01350 at 371.680 kb on + strand, within RPSI07_RS01350 at 371.680 kb on + strand, within RPSI07_RS01350 at 371.681 kb on - strand, within RPSI07_RS01350 at 371.681 kb on - strand, within RPSI07_RS01350 at 371.681 kb on - strand, within RPSI07_RS01350 at 371.681 kb on - strand, within RPSI07_RS01350 at 371.681 kb on - strand, within RPSI07_RS01350 at 371.681 kb on - strand, within RPSI07_RS01350 at 371.803 kb on + strand, within RPSI07_RS01350 at 371.803 kb on + strand, within RPSI07_RS01350 at 371.803 kb on + strand, within RPSI07_RS01350 at 371.803 kb on + strand, within RPSI07_RS01350 at 371.803 kb on + strand, within RPSI07_RS01350 at 371.803 kb on + strand, within RPSI07_RS01350 at 371.803 kb on + strand, within RPSI07_RS01350 at 371.804 kb on - strand, within RPSI07_RS01350 at 371.804 kb on - strand, within RPSI07_RS01350 at 371.804 kb on - strand, within RPSI07_RS01350 at 372.106 kb on + strand, within RPSI07_RS01350 at 372.106 kb on + strand, within RPSI07_RS01350 at 372.106 kb on + strand, within RPSI07_RS01350 at 372.107 kb on - strand, within RPSI07_RS01350 at 372.107 kb on - strand, within RPSI07_RS01350 at 372.247 kb on + strand, within RPSI07_RS01350 at 372.247 kb on + strand, within RPSI07_RS01350 at 372.248 kb on - strand, within RPSI07_RS01350 at 372.248 kb on - strand, within RPSI07_RS01350 at 372.248 kb on - strand, within RPSI07_RS01350 at 372.248 kb on - strand, within RPSI07_RS01350 at 372.248 kb on - strand, within RPSI07_RS01350 at 372.313 kb on + strand, within RPSI07_RS01350 at 372.313 kb on + strand, within RPSI07_RS01350 at 372.313 kb on + strand, within RPSI07_RS01350 at 372.313 kb on + strand, within RPSI07_RS01350 at 372.313 kb on + strand, within RPSI07_RS01350 at 372.314 kb on - strand, within RPSI07_RS01350 at 372.677 kb on - strand, within RPSI07_RS01350 at 373.108 kb on + strand at 373.108 kb on + strand at 373.108 kb on + strand at 373.108 kb on + strand at 373.108 kb on + strand at 373.109 kb on - strand at 373.109 kb on - strand at 373.109 kb on - strand at 373.109 kb on - strand at 373.135 kb on + strand at 373.135 kb on + strand at 373.135 kb on + strand at 373.135 kb on + strand at 373.135 kb on + strand at 373.135 kb on + strand at 373.135 kb on + strand at 373.135 kb on + strand at 373.135 kb on + strand at 373.136 kb on - strand at 373.136 kb on - strand at 373.136 kb on - strand at 373.136 kb on - strand at 373.136 kb on - strand at 373.136 kb on - strand at 373.136 kb on - strand at 373.136 kb on - strand at 373.171 kb on + strand at 373.216 kb on + strand at 373.216 kb on + strand at 373.217 kb on - strand at 373.281 kb on - strand at 373.549 kb on + strand, within RPSI07_RS24195 at 373.549 kb on + strand, within RPSI07_RS24195 at 373.591 kb on + strand, within RPSI07_RS24195 at 373.591 kb on + strand, within RPSI07_RS24195 at 373.591 kb on + strand, within RPSI07_RS24195 at 373.591 kb on + strand, within RPSI07_RS24195 at 373.713 kb on + strand at 373.715 kb on + strand at 373.715 kb on + strand at 373.715 kb on + strand at 373.715 kb on + strand at 373.715 kb on + strand at 373.715 kb on + strand at 373.715 kb on + strand at 373.716 kb on - strand at 373.733 kb on + strand at 373.733 kb on + strand at 373.733 kb on + strand at 373.758 kb on + strand at 373.758 kb on + strand at 373.758 kb on + strand at 374.006 kb on + strand at 374.016 kb on + strand at 374.017 kb on - strand at 374.124 kb on + strand, within RPSI07_RS01355 at 374.124 kb on + strand, within RPSI07_RS01355 at 374.125 kb on - strand, within RPSI07_RS01355
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix_minus_Chloramphenicol_and_CrystalViolet remove 369,664 + RPSI07_RS01340 0.70 +0.0 369,664 + RPSI07_RS01340 0.70 -0.6 369,665 - RPSI07_RS01340 0.70 +0.0 369,665 - RPSI07_RS01340 0.70 -0.1 369,733 - RPSI07_RS01340 0.80 -0.5 369,759 + RPSI07_RS01340 0.84 -1.0 369,759 + RPSI07_RS01340 0.84 -0.4 369,759 + RPSI07_RS01340 0.84 -1.0 369,790 - RPSI07_RS01340 0.89 -0.6 369,889 + -0.6 369,890 - +0.2 369,890 - -0.7 370,026 + +0.0 370,027 - +1.6 370,113 + +1.0 370,113 + +0.0 370,114 - +1.0 370,114 - +0.4 370,114 - -0.1 370,141 + +0.6 370,141 + +0.6 370,141 + +0.0 370,142 - +0.7 370,142 - +0.0 370,151 + -0.1 370,165 - -0.7 370,195 + +0.6 370,734 - +0.3 370,754 + +0.8 370,754 + +0.0 370,755 - +0.1 370,755 - -0.0 370,755 - +0.0 370,780 + RPSI07_RS01350 0.10 -1.3 370,780 + RPSI07_RS01350 0.10 +0.0 370,781 - +0.0 370,995 + RPSI07_RS01350 0.18 -1.2 370,995 + RPSI07_RS01350 0.18 -0.5 370,995 + RPSI07_RS01350 0.18 -0.1 370,996 - RPSI07_RS01350 0.18 -0.4 370,996 - RPSI07_RS01350 0.18 -0.7 370,996 - RPSI07_RS01350 0.18 +0.1 371,093 + RPSI07_RS01350 0.22 -1.0 371,093 + RPSI07_RS01350 0.22 +1.0 371,093 + RPSI07_RS01350 0.22 -0.2 371,094 - RPSI07_RS01350 0.22 -0.3 371,094 - RPSI07_RS01350 0.22 -0.4 371,095 + RPSI07_RS01350 0.22 -0.1 371,095 + RPSI07_RS01350 0.22 -0.5 371,095 + RPSI07_RS01350 0.22 -0.2 371,095 + RPSI07_RS01350 0.22 -0.1 371,096 - RPSI07_RS01350 0.22 -0.7 371,096 - +0.0 371,096 - RPSI07_RS01350 0.22 -0.5 371,096 - RPSI07_RS01350 0.22 -1.1 371,209 + RPSI07_RS01350 0.26 +0.4 371,210 - RPSI07_RS01350 0.26 +0.0 371,210 - RPSI07_RS01350 0.26 -0.6 371,210 - RPSI07_RS01350 0.26 -0.6 371,221 + RPSI07_RS01350 0.27 -0.4 371,221 + RPSI07_RS01350 0.27 +0.4 371,222 - RPSI07_RS01350 0.27 +1.0 371,222 - RPSI07_RS01350 0.27 +0.4 371,222 - RPSI07_RS01350 0.27 +1.0 371,222 - RPSI07_RS01350 0.27 +0.4 371,222 - RPSI07_RS01350 0.27 +1.6 371,222 - RPSI07_RS01350 0.27 -0.4 371,222 - RPSI07_RS01350 0.27 -0.5 371,222 - RPSI07_RS01350 0.27 -0.3 371,353 + RPSI07_RS01350 0.32 +0.1 371,354 - RPSI07_RS01350 0.32 -0.3 371,354 - RPSI07_RS01350 0.32 -0.4 371,680 + RPSI07_RS01350 0.44 +0.2 371,680 + RPSI07_RS01350 0.44 -0.4 371,680 + RPSI07_RS01350 0.44 -0.8 371,680 + RPSI07_RS01350 0.44 +0.3 371,680 + RPSI07_RS01350 0.44 +0.2 371,680 + RPSI07_RS01350 0.44 -0.2 371,680 + RPSI07_RS01350 0.44 -0.4 371,680 + RPSI07_RS01350 0.44 -0.7 371,680 + RPSI07_RS01350 0.44 +0.5 371,681 - RPSI07_RS01350 0.44 -0.5 371,681 - RPSI07_RS01350 0.44 -0.2 371,681 - RPSI07_RS01350 0.44 -0.6 371,681 - RPSI07_RS01350 0.44 -0.2 371,681 - RPSI07_RS01350 0.44 +0.3 371,681 - RPSI07_RS01350 0.44 -0.3 371,803 + RPSI07_RS01350 0.48 +1.0 371,803 + RPSI07_RS01350 0.48 -0.0 371,803 + RPSI07_RS01350 0.48 -0.3 371,803 + RPSI07_RS01350 0.48 -0.1 371,803 + RPSI07_RS01350 0.48 -0.8 371,803 + RPSI07_RS01350 0.48 +0.3 371,803 + RPSI07_RS01350 0.48 +0.0 371,804 - RPSI07_RS01350 0.48 -0.0 371,804 - RPSI07_RS01350 0.48 +0.1 371,804 - RPSI07_RS01350 0.48 -0.9 372,106 + RPSI07_RS01350 0.60 +0.4 372,106 + RPSI07_RS01350 0.60 -0.2 372,106 + RPSI07_RS01350 0.60 -0.0 372,107 - RPSI07_RS01350 0.60 -0.6 372,107 - RPSI07_RS01350 0.60 -1.0 372,247 + RPSI07_RS01350 0.65 +0.6 372,247 + RPSI07_RS01350 0.65 +0.1 372,248 - RPSI07_RS01350 0.65 +0.8 372,248 - RPSI07_RS01350 0.65 +0.5 372,248 - RPSI07_RS01350 0.65 +1.0 372,248 - RPSI07_RS01350 0.65 -1.0 372,248 - RPSI07_RS01350 0.65 +1.0 372,313 + RPSI07_RS01350 0.67 -0.6 372,313 + RPSI07_RS01350 0.67 -1.5 372,313 + RPSI07_RS01350 0.67 -1.2 372,313 + RPSI07_RS01350 0.67 +0.0 372,313 + RPSI07_RS01350 0.67 +0.6 372,314 - RPSI07_RS01350 0.67 -0.1 372,677 - RPSI07_RS01350 0.81 +0.3 373,108 + +0.1 373,108 + -1.0 373,108 + -1.3 373,108 + +0.2 373,108 + +2.0 373,109 - -0.6 373,109 - -0.4 373,109 - -1.0 373,109 - +0.0 373,135 + +0.3 373,135 + -0.9 373,135 + +0.5 373,135 + +0.4 373,135 + -0.4 373,135 + +1.7 373,135 + +0.3 373,135 + +1.0 373,135 + +0.0 373,136 - -0.5 373,136 - -0.7 373,136 - -1.2 373,136 - +0.3 373,136 - -1.0 373,136 - -0.2 373,136 - -0.3 373,136 - -1.3 373,171 + +0.2 373,216 + +0.7 373,216 + +0.6 373,217 - -0.5 373,281 - -1.9 373,549 + RPSI07_RS24195 0.63 +0.6 373,549 + RPSI07_RS24195 0.63 +0.7 373,591 + RPSI07_RS24195 0.74 +0.8 373,591 + RPSI07_RS24195 0.74 +0.6 373,591 + RPSI07_RS24195 0.74 +0.8 373,591 + RPSI07_RS24195 0.74 +0.9 373,713 + +1.4 373,715 + +1.6 373,715 + +0.8 373,715 + +1.3 373,715 + +0.2 373,715 + +1.0 373,715 + +0.9 373,715 + +1.6 373,716 - +0.4 373,733 + +1.0 373,733 + +1.0 373,733 + -0.1 373,758 + +0.6 373,758 + +0.6 373,758 + +1.0 374,006 + -0.6 374,016 + +0.0 374,017 - -0.8 374,124 + RPSI07_RS01355 0.40 +0.4 374,124 + RPSI07_RS01355 0.40 -0.4 374,125 - RPSI07_RS01355 0.41 +0.0
Or see this region's nucleotide sequence