Experiment: MelonXylem
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 LU632_RS00405 and LU632_RS00410 are separated by 121 nucleotides LU632_RS00410 and LU632_RS00415 overlap by 20 nucleotides LU632_RS00415 and LU632_RS00420 overlap by 14 nucleotides LU632_RS00420 and sctJ overlap by 4 nucleotides
LU632_RS00405: LU632_RS00405 - IS5 family transposase, at 85,570 to 86,375
_RS00405
LU632_RS00410: LU632_RS00410 - hypothetical protein, at 86,497 to 86,919
_RS00410
LU632_RS00415: LU632_RS00415 - type III secretion protein, at 86,900 to 87,634
_RS00415
LU632_RS00420: LU632_RS00420 - type III secretion system protein, at 87,621 to 88,175
_RS00420
LU632_RS00425: sctJ - type III secretion inner membrane ring lipoprotein SctJ, at 88,172 to 88,942
sctJ
Position (kb) 86
87
88 Strain fitness (log2 ratio) -1
0
1
2 at 86.503 kb on + strand at 86.569 kb on + strand, within LU632_RS00410 at 86.586 kb on + strand, within LU632_RS00410 at 86.591 kb on + strand, within LU632_RS00410 at 86.616 kb on - strand, within LU632_RS00410 at 87.626 kb on + strand at 87.770 kb on + strand, within LU632_RS00420 at 87.770 kb on + strand, within LU632_RS00420 at 87.960 kb on + strand, within LU632_RS00420 at 88.556 kb on - strand, within sctJ at 88.619 kb on - strand, within sctJ
Per-strain Table
Position Strand Gene LocusTag Fraction MelonXylem remove 86,503 + +2.2 86,569 + LU632_RS00410 0.17 +0.1 86,586 + LU632_RS00410 0.21 -0.6 86,591 + LU632_RS00410 0.22 +0.0 86,616 - LU632_RS00410 0.28 -0.5 87,626 + +1.0 87,770 + LU632_RS00420 0.27 +0.3 87,770 + LU632_RS00420 0.27 -0.4 87,960 + LU632_RS00420 0.61 +0.5 88,556 - sctJ LU632_RS00425 0.50 -0.0 88,619 - sctJ LU632_RS00425 0.58 -0.4
Or see this region's nucleotide sequence