Experiment: Ying_Others16 rep A; time point 3
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 GFF3476 and GFF3477 are separated by 17 nucleotides GFF3477 and GFF3478 are separated by 2 nucleotides GFF3478 and GFF3479 are separated by 305 nucleotides
GFF3476 - Branched-chain amino acid transport ATP-binding protein LivF (TC 3.A.1.4.1), at 357,427 to 358,143
GFF3476
GFF3477 - High-affinity branched-chain amino acid transport system permease protein LivH (TC 3.A.1.4.1), at 358,161 to 359,033
GFF3477
GFF3478 - Branched-chain amino acid transport system permease protein LivM (TC 3.A.1.4.1), at 359,036 to 360,040
GFF3478
GFF3479 - Type IV secretory pathway, VirD2 components (relaxase), at 360,346 to 362,304
GFF3479
Position (kb) 359
360
361 Strain fitness (log2 ratio) -2
-1
0
1
2
3
4
5
6
7 at 358.052 kb on - strand, within GFF3476 at 358.142 kb on - strand at 358.142 kb on - strand at 358.212 kb on + strand at 358.212 kb on + strand at 358.212 kb on + strand at 358.213 kb on - strand at 358.242 kb on - strand at 358.245 kb on + strand at 358.246 kb on - strand at 358.302 kb on + strand, within GFF3477 at 358.479 kb on - strand, within GFF3477 at 358.923 kb on + strand, within GFF3477 at 358.924 kb on - strand, within GFF3477 at 358.924 kb on - strand, within GFF3477 at 359.154 kb on - strand, within GFF3478 at 359.154 kb on - strand, within GFF3478 at 359.162 kb on + strand, within GFF3478 at 359.162 kb on + strand, within GFF3478 at 359.163 kb on - strand, within GFF3478 at 359.163 kb on - strand, within GFF3478 at 359.318 kb on + strand, within GFF3478 at 359.402 kb on + strand, within GFF3478 at 359.402 kb on + strand, within GFF3478 at 359.434 kb on - strand, within GFF3478 at 359.821 kb on + strand, within GFF3478 at 359.965 kb on - strand at 360.099 kb on + strand at 360.189 kb on + strand at 360.190 kb on - strand at 360.190 kb on - strand at 360.305 kb on + strand at 360.306 kb on - strand at 360.333 kb on + strand at 360.334 kb on - strand at 360.403 kb on + strand at 360.423 kb on + strand at 360.528 kb on - strand at 360.528 kb on - strand at 360.610 kb on + strand, within GFF3479 at 360.611 kb on - strand, within GFF3479 at 360.980 kb on - strand, within GFF3479
Per-strain Table
Position Strand Gene LocusTag Fraction Ying_Others16 rep A; time point 3 remove 358,052 - GFF3476 0.87 +0.2 358,142 - +1.3 358,142 - +0.2 358,212 + +0.8 358,212 + -0.4 358,212 + -0.4 358,213 - -0.2 358,242 - -0.7 358,245 + -0.2 358,246 - -0.3 358,302 + GFF3477 0.16 -0.4 358,479 - GFF3477 0.36 -0.3 358,923 + GFF3477 0.87 -0.1 358,924 - GFF3477 0.87 -1.2 358,924 - GFF3477 0.87 +0.3 359,154 - GFF3478 0.12 -0.8 359,154 - GFF3478 0.12 +0.1 359,162 + GFF3478 0.13 -0.3 359,162 + GFF3478 0.13 -2.0 359,163 - GFF3478 0.13 +0.8 359,163 - GFF3478 0.13 -0.2 359,318 + GFF3478 0.28 +0.0 359,402 + GFF3478 0.36 +7.3 359,402 + GFF3478 0.36 -0.8 359,434 - GFF3478 0.40 +0.3 359,821 + GFF3478 0.78 -1.3 359,965 - -0.3 360,099 + +1.3 360,189 + -0.3 360,190 - +0.1 360,190 - -0.9 360,305 + -1.1 360,306 - +1.5 360,333 + +0.4 360,334 - -0.1 360,403 + -0.3 360,423 + -0.5 360,528 - +0.2 360,528 - -0.6 360,610 + GFF3479 0.13 -0.3 360,611 - GFF3479 0.14 +1.4 360,980 - GFF3479 0.32 -0.1
Or see this region's nucleotide sequence