Experiment: SMN_rich
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 Rru_A3737 and Rru_A3738 are separated by 9 nucleotides Rru_A3738 and Rru_A3739 overlap by 4 nucleotides Rru_A3739 and Rru_A3740 are separated by 357 nucleotides Rru_A3740 and Rru_A3741 overlap by 4 nucleotides
Rru_A3737: Rru_A3737 - KAP P-loop (NCBI), at 4,286,428 to 4,287,762
_A3737
Rru_A3738: Rru_A3738 - Phage integrase (NCBI), at 4,287,772 to 4,288,758
_A3738
Rru_A3739: Rru_A3739 - hypothetical protein (NCBI), at 4,288,755 to 4,290,449
_A3739
Rru_A3740: Rru_A3740 - Shikimate kinase (NCBI), at 4,290,807 to 4,291,373
_A3740
Rru_A3741: Rru_A3741 - 3-dehydroquinate synthase (NCBI), at 4,291,370 to 4,292,527
_A3741
Position (kb)
4288
4289
4290
4291 Strain fitness (log2 ratio)
-1
0
1 at 4287.777 kb on + strand at 4289.147 kb on - strand, within Rru_A3739 at 4289.243 kb on - strand, within Rru_A3739 at 4289.426 kb on - strand, within Rru_A3739 at 4289.432 kb on - strand, within Rru_A3739 at 4289.594 kb on - strand, within Rru_A3739 at 4289.868 kb on + strand, within Rru_A3739 at 4290.667 kb on + strand at 4290.668 kb on - strand at 4290.686 kb on - strand at 4290.686 kb on - strand at 4290.686 kb on - strand at 4290.690 kb on - strand at 4290.720 kb on + strand
Per-strain Table
Position Strand Gene LocusTag Fraction SMN_rich remove 4,287,777 + +0.4 4,289,147 - Rru_A3739 0.23 -0.9 4,289,243 - Rru_A3739 0.29 +0.6 4,289,426 - Rru_A3739 0.40 -1.5 4,289,432 - Rru_A3739 0.40 -0.8 4,289,594 - Rru_A3739 0.49 -0.4 4,289,868 + Rru_A3739 0.66 -1.1 4,290,667 + -0.2 4,290,668 - +1.4 4,290,686 - -0.5 4,290,686 - -0.1 4,290,686 - -0.1 4,290,690 - -0.3 4,290,720 + -1.3
Or see this region's nucleotide sequence