Experiment: Ying_Others16 rep B; 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 GFF3453 and GFF3454 are separated by 50 nucleotides GFF3454 and GFF3455 overlap by 4 nucleotides GFF3455 and GFF3456 are separated by 244 nucleotides GFF3456 and GFF3457 are separated by 119 nucleotides
GFF3453 - Conjugative transfer protein TrbB, at 333,866 to 334,876
GFF3453
GFF3454 - CopG domain-containing protein, at 334,927 to 335,427
GFF3454
GFF3455 - Type IV secretion system protein VirD4, at 335,424 to 337,445
GFF3455
GFF3456 - Probable lipoprotein, at 337,690 to 337,836
GFF3456
GFF3457 - Transcriptional regulator, LysR family, at 337,956 to 338,888
GFF3457
Position (kb) 335
336
337
338 Strain fitness (log2 ratio) -1
0
1
2 at 334.679 kb on + strand, within GFF3453 at 335.175 kb on - strand, within GFF3454 at 335.947 kb on + strand, within GFF3455 at 337.019 kb on - strand, within GFF3455 at 337.112 kb on - strand, within GFF3455 at 337.231 kb on + strand, within GFF3455 at 337.276 kb on + strand at 337.531 kb on - strand at 337.532 kb on + strand at 337.532 kb on + strand at 337.620 kb on + strand at 337.721 kb on + strand, within GFF3456 at 337.780 kb on + strand, within GFF3456 at 337.780 kb on + strand, within GFF3456 at 337.781 kb on - strand, within GFF3456 at 337.781 kb on - strand, within GFF3456 at 338.244 kb on - strand, within GFF3457 at 338.397 kb on - strand, within GFF3457
Per-strain Table
Position Strand Gene LocusTag Fraction Ying_Others16 rep B; time point 2 remove 334,679 + GFF3453 0.80 +0.7 335,175 - GFF3454 0.50 -0.6 335,947 + GFF3455 0.26 -0.3 337,019 - GFF3455 0.79 +0.2 337,112 - GFF3455 0.83 -0.0 337,231 + GFF3455 0.89 +2.0 337,276 + -0.6 337,531 - -0.3 337,532 + +0.2 337,532 + -0.9 337,620 + -0.3 337,721 + GFF3456 0.21 +0.0 337,780 + GFF3456 0.61 +0.6 337,780 + GFF3456 0.61 +0.7 337,781 - GFF3456 0.62 -0.4 337,781 - GFF3456 0.62 -0.4 338,244 - GFF3457 0.31 -0.3 338,397 - GFF3457 0.47 -0.0
Or see this region's nucleotide sequence