Experiment: Casamino-acids
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 rsmF and yebV are separated by 117 nucleotides yebV and yebW are separated by 20 nucleotides yebW and pphA are separated by 0 nucleotides pphA and yebY are separated by 395 nucleotides yebY and copD are separated by 12 nucleotides
NIAGMN_01620: rsmF - 16S rRNA (cytosine(1407)-C(5))-methyltransferase RsmF, at 297,555 to 299,075
rsmF
NIAGMN_01625: yebV - Uncharacterized protein YebV, at 299,193 to 299,429
yebV
NIAGMN_01630: yebW - Uncharacterized protein YebW, at 299,450 to 299,725
yebW
NIAGMN_01635: pphA - protein-serine/threonine phosphatase, at 299,726 to 300,382
pphA
NIAGMN_01650: yebY - Uncharacterized protein YebY, at 300,778 to 301,119
yebY
NIAGMN_01655: copD - copper homeostasis membrane protein CopD, at 301,132 to 302,004
copD
Position (kb) 299
300
301 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3 at 299.175 kb on + strand at 299.306 kb on + strand, within yebV at 299.307 kb on - strand, within yebV at 300.155 kb on + strand, within pphA at 300.476 kb on + strand at 300.478 kb on + strand at 300.478 kb on + strand at 300.516 kb on + strand at 300.597 kb on + strand at 300.609 kb on - strand at 300.775 kb on + strand at 301.204 kb on - strand at 301.269 kb on - strand, within copD at 301.296 kb on + strand, within copD at 301.296 kb on + strand, within copD at 301.297 kb on - strand, within copD at 301.297 kb on - strand, within copD at 301.325 kb on - strand, within copD at 301.348 kb on - strand, within copD
Per-strain Table
Position Strand Gene LocusTag Fraction Casamino-acids remove 299,175 + +0.2 299,306 + yebV NIAGMN_01625 0.48 -0.0 299,307 - yebV NIAGMN_01625 0.48 +0.4 300,155 + pphA NIAGMN_01635 0.65 -1.6 300,476 + -1.0 300,478 + +1.1 300,478 + -3.0 300,516 + +1.8 300,597 + +2.3 300,609 - -0.1 300,775 + +0.6 301,204 - -0.2 301,269 - copD NIAGMN_01655 0.16 +3.3 301,296 + copD NIAGMN_01655 0.19 +1.2 301,296 + copD NIAGMN_01655 0.19 -1.0 301,297 - copD NIAGMN_01655 0.19 +0.2 301,297 - copD NIAGMN_01655 0.19 +1.2 301,325 - copD NIAGMN_01655 0.22 +0.1 301,348 - copD NIAGMN_01655 0.25 +0.5
Or see this region's nucleotide sequence