Experiment: marine broth pH 6
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 PGA1_c08540 and PGA1_c08550 are separated by 115 nucleotides PGA1_c08550 and PGA1_c08560 are separated by 238 nucleotides PGA1_c08560 and PGA1_c08570 are separated by 222 nucleotides
PGA1_c08540: PGA1_c08540 - response regulator PleD, at 880,533 to 881,963
_c08540
PGA1_c08550: PGA1_c08550 - Protein of unknown function (DUF3572)., at 882,079 to 882,363
_c08550
PGA1_c08560: PGA1_c08560 - hydrolase, HAD-superfamily, at 882,602 to 883,291
_c08560
PGA1_c08570: PGA1_c08570 - putative trimethylamine methyltransferase, at 883,514 to 885,073
_c08570
Position (kb) 882
883
884 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2 at 881.814 kb on - strand, within PGA1_c08540 at 881.832 kb on + strand at 881.871 kb on - strand at 881.900 kb on + strand at 881.908 kb on - strand at 881.908 kb on - strand at 881.925 kb on + strand at 881.933 kb on - strand at 881.948 kb on + strand at 881.948 kb on + strand at 881.955 kb on + strand at 881.956 kb on - strand at 881.964 kb on - strand at 881.967 kb on + strand at 881.971 kb on - strand at 881.971 kb on - strand at 881.972 kb on + strand at 881.972 kb on + strand at 881.979 kb on - strand at 881.980 kb on - strand at 882.016 kb on + strand at 882.066 kb on - strand at 882.113 kb on - strand, within PGA1_c08550 at 882.179 kb on + strand, within PGA1_c08550 at 882.188 kb on + strand, within PGA1_c08550 at 882.348 kb on + strand at 882.391 kb on + strand at 882.398 kb on + strand at 882.408 kb on + strand at 882.472 kb on - strand at 882.525 kb on + strand at 882.539 kb on + strand at 882.560 kb on - strand at 882.567 kb on + strand at 882.567 kb on + strand at 882.575 kb on - strand at 882.575 kb on - strand at 882.575 kb on - strand at 882.592 kb on + strand at 882.593 kb on + strand at 882.606 kb on - strand at 882.639 kb on - strand at 882.668 kb on + strand at 882.692 kb on - strand, within PGA1_c08560 at 882.849 kb on - strand, within PGA1_c08560 at 882.898 kb on + strand, within PGA1_c08560 at 882.898 kb on + strand, within PGA1_c08560 at 882.946 kb on + strand, within PGA1_c08560 at 882.952 kb on + strand, within PGA1_c08560 at 882.960 kb on + strand, within PGA1_c08560 at 882.960 kb on - strand, within PGA1_c08560 at 883.019 kb on - strand, within PGA1_c08560 at 883.019 kb on - strand, within PGA1_c08560 at 883.210 kb on + strand, within PGA1_c08560 at 883.210 kb on + strand, within PGA1_c08560 at 883.210 kb on + strand, within PGA1_c08560 at 883.210 kb on + strand, within PGA1_c08560 at 883.218 kb on - strand, within PGA1_c08560 at 883.218 kb on - strand, within PGA1_c08560 at 883.308 kb on + strand at 883.308 kb on + strand at 883.422 kb on + strand at 883.430 kb on - strand at 883.496 kb on + strand at 883.496 kb on + strand at 883.499 kb on - strand at 883.513 kb on + strand at 883.605 kb on + strand at 883.618 kb on - strand at 883.620 kb on + strand at 883.640 kb on - strand at 883.715 kb on - strand, within PGA1_c08570 at 883.746 kb on - strand, within PGA1_c08570 at 883.759 kb on + strand, within PGA1_c08570 at 883.759 kb on + strand, within PGA1_c08570 at 883.760 kb on + strand, within PGA1_c08570 at 883.781 kb on - strand, within PGA1_c08570 at 883.851 kb on - strand, within PGA1_c08570 at 883.851 kb on - strand, within PGA1_c08570 at 883.942 kb on + strand, within PGA1_c08570 at 884.066 kb on + strand, within PGA1_c08570 at 884.100 kb on + strand, within PGA1_c08570 at 884.142 kb on - strand, within PGA1_c08570 at 884.180 kb on + strand, within PGA1_c08570 at 884.182 kb on + strand, within PGA1_c08570 at 884.188 kb on - strand, within PGA1_c08570
Per-strain Table
Position Strand Gene LocusTag Fraction marine broth pH 6 remove 881,814 - PGA1_c08540 0.90 -0.4 881,832 + +0.3 881,871 - +0.8 881,900 + -0.6 881,908 - -0.1 881,908 - +0.7 881,925 + +1.2 881,933 - +0.7 881,948 + +2.0 881,948 + +0.1 881,955 + -0.6 881,956 - -0.4 881,964 - +0.9 881,967 + +0.3 881,971 - -1.7 881,971 - +0.9 881,972 + -0.9 881,972 + +0.7 881,979 - +0.1 881,980 - -1.1 882,016 + -2.1 882,066 - +0.8 882,113 - PGA1_c08550 0.12 +0.4 882,179 + PGA1_c08550 0.35 -1.8 882,188 + PGA1_c08550 0.38 -0.6 882,348 + +0.8 882,391 + -1.0 882,398 + +1.2 882,408 + +0.1 882,472 - -0.1 882,525 + -1.8 882,539 + +0.1 882,560 - -0.0 882,567 + +0.4 882,567 + -0.1 882,575 - -3.7 882,575 - +0.0 882,575 - +0.7 882,592 + +0.5 882,593 + +1.1 882,606 - -0.9 882,639 - -0.0 882,668 + +0.5 882,692 - PGA1_c08560 0.13 -0.3 882,849 - PGA1_c08560 0.36 +1.8 882,898 + PGA1_c08560 0.43 +1.7 882,898 + PGA1_c08560 0.43 -0.3 882,946 + PGA1_c08560 0.50 -0.9 882,952 + PGA1_c08560 0.51 +0.5 882,960 + PGA1_c08560 0.52 +0.4 882,960 - PGA1_c08560 0.52 -0.4 883,019 - PGA1_c08560 0.60 -0.7 883,019 - PGA1_c08560 0.60 +0.3 883,210 + PGA1_c08560 0.88 -0.5 883,210 + PGA1_c08560 0.88 +1.7 883,210 + PGA1_c08560 0.88 -0.9 883,210 + PGA1_c08560 0.88 +0.6 883,218 - PGA1_c08560 0.89 +0.2 883,218 - PGA1_c08560 0.89 +0.7 883,308 + +0.4 883,308 + +1.9 883,422 + +1.7 883,430 - -0.7 883,496 + +1.4 883,496 + +0.8 883,499 - +1.0 883,513 + -4.3 883,605 + -0.6 883,618 - -0.1 883,620 + -1.0 883,640 - -1.2 883,715 - PGA1_c08570 0.13 -0.8 883,746 - PGA1_c08570 0.15 +0.8 883,759 + PGA1_c08570 0.16 -0.0 883,759 + PGA1_c08570 0.16 -0.8 883,760 + PGA1_c08570 0.16 -2.1 883,781 - PGA1_c08570 0.17 -3.0 883,851 - PGA1_c08570 0.22 +0.4 883,851 - PGA1_c08570 0.22 +0.9 883,942 + PGA1_c08570 0.27 -1.2 884,066 + PGA1_c08570 0.35 +0.7 884,100 + PGA1_c08570 0.38 +0.5 884,142 - PGA1_c08570 0.40 -1.2 884,180 + PGA1_c08570 0.43 -0.0 884,182 + PGA1_c08570 0.43 -2.2 884,188 - PGA1_c08570 0.43 -0.2
Or see this region's nucleotide sequence