Experiment: Ying_Nucleobase14 rep A; time point 2
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 GFF3135 and GFF3136 are separated by 262 nucleotides GFF3136 and GFF3137 overlap by 4 nucleotides GFF3137 and GFF3138 are separated by 9 nucleotides GFF3138 and GFF3139 are separated by 61 nucleotides
GFF3135 - IncF plasmid conjugative transfer pilus assembly protein TraF, at 13,737 to 14,360
GFF3135
GFF3136 - hypothetical protein, at 14,623 to 15,009
GFF3136
GFF3137 - IncF plasmid conjugative transfer protein TraN, at 15,006 to 17,420
GFF3137
GFF3138 - IncF plasmid conjugative transfer protein TrbC, at 17,430 to 18,155
GFF3138
GFF3139 - IncF plasmid conjugative transfer pilus assembly protein TraU, at 18,217 to 19,236
GFF3139
Position (kb) 15
16
17
18 Strain fitness (log2 ratio) -2
-1
0
1 at 14.065 kb on + strand, within GFF3135 at 14.236 kb on + strand, within GFF3135 at 14.237 kb on - strand, within GFF3135 at 14.276 kb on - strand, within GFF3135 at 14.455 kb on + strand at 14.564 kb on + strand at 14.566 kb on - strand at 14.660 kb on + strand at 14.661 kb on + strand at 14.661 kb on - strand at 14.796 kb on - strand, within GFF3136 at 14.796 kb on - strand, within GFF3136 at 15.107 kb on - strand at 15.329 kb on - strand, within GFF3137 at 15.329 kb on - strand, within GFF3137 at 15.418 kb on + strand, within GFF3137 at 15.418 kb on + strand, within GFF3137 at 15.481 kb on + strand, within GFF3137 at 15.844 kb on + strand, within GFF3137 at 15.845 kb on - strand, within GFF3137 at 15.937 kb on + strand, within GFF3137 at 15.938 kb on - strand, within GFF3137 at 16.274 kb on - strand, within GFF3137 at 16.327 kb on + strand, within GFF3137 at 16.327 kb on + strand, within GFF3137 at 16.328 kb on - strand, within GFF3137 at 16.459 kb on + strand, within GFF3137 at 16.460 kb on - strand, within GFF3137 at 16.460 kb on - strand, within GFF3137 at 16.505 kb on - strand, within GFF3137 at 16.505 kb on - strand, within GFF3137 at 16.930 kb on + strand, within GFF3137 at 16.931 kb on - strand, within GFF3137 at 17.207 kb on - strand at 17.432 kb on - strand at 17.528 kb on - strand, within GFF3138 at 18.221 kb on + strand at 18.390 kb on - strand, within GFF3139
Per-strain Table
Position Strand Gene LocusTag Fraction Ying_Nucleobase14 rep A; time point 2 remove 14,065 + GFF3135 0.53 -0.0 14,236 + GFF3135 0.80 -1.0 14,237 - GFF3135 0.80 +0.9 14,276 - GFF3135 0.86 +0.5 14,455 + -0.0 14,564 + -1.2 14,566 - -0.5 14,660 + -0.7 14,661 + +0.3 14,661 - -0.4 14,796 - GFF3136 0.45 +0.5 14,796 - GFF3136 0.45 +0.2 15,107 - -0.9 15,329 - GFF3137 0.13 +0.3 15,329 - GFF3137 0.13 -0.2 15,418 + GFF3137 0.17 +0.1 15,418 + GFF3137 0.17 -0.9 15,481 + GFF3137 0.20 +0.1 15,844 + GFF3137 0.35 +0.1 15,845 - GFF3137 0.35 -0.1 15,937 + GFF3137 0.39 -0.6 15,938 - GFF3137 0.39 +0.0 16,274 - GFF3137 0.53 +0.2 16,327 + GFF3137 0.55 +0.2 16,327 + GFF3137 0.55 -0.1 16,328 - GFF3137 0.55 -0.6 16,459 + GFF3137 0.60 -0.0 16,460 - GFF3137 0.60 -0.7 16,460 - GFF3137 0.60 +0.4 16,505 - GFF3137 0.62 +0.5 16,505 - GFF3137 0.62 -0.1 16,930 + GFF3137 0.80 -0.1 16,931 - GFF3137 0.80 +0.0 17,207 - -1.2 17,432 - +0.5 17,528 - GFF3138 0.13 -0.1 18,221 + -2.0 18,390 - GFF3139 0.17 +0.6
Or see this region's nucleotide sequence