Experiment: Mixed culture; Syntrophotalea carbinolica 1:1 starting OD to methanogen; 1,3-Propanediol_timecourse1; 20 generations
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 MMP_RS02330 and MMP_RS02335 are separated by 155 nucleotides MMP_RS02335 and MMP_RS02340 are separated by 47 nucleotides MMP_RS02340 and MMP_RS02345 are separated by 31 nucleotides MMP_RS02345 and MMP_RS02350 are separated by 6 nucleotides MMP_RS02350 and MMP_RS02355 are separated by 1 nucleotides MMP_RS02355 and MMP_RS02360 are separated by 97 nucleotides
MMP_RS02330: MMP_RS02330 - dihydroorotate dehydrogenase, at 438,564 to 439,478
_RS02330
MMP_RS02335: MMP_RS02335 - DNA-directed RNA polymerase, at 439,634 to 440,197
_RS02335
MMP_RS02340: MMP_RS02340 - DNA-directed RNA polymerase subunit E'', at 440,245 to 440,421
_RS02340
MMP_RS02345: MMP_RS02345 - GTP-dependent dephospho-CoA kinase family protein, at 440,453 to 440,929
_RS02345
MMP_RS02350: MMP_RS02350 - 30S ribosomal protein S24e, at 440,936 to 441,244
_RS02350
MMP_RS02355: MMP_RS02355 - 30S ribosomal protein S27ae, at 441,246 to 441,449
_RS02355
MMP_RS02360: MMP_RS02360 - hypothetical protein, at 441,547 to 441,783
_RS02360
Position (kb) 440
441 Strain fitness (log2 ratio) -7
-6
-5
-4
-3
-2
-1
0
1 at 439.508 kb on + strand at 439.509 kb on - strand at 439.530 kb on + strand at 439.534 kb on + strand at 439.548 kb on - strand at 439.549 kb on + strand at 439.549 kb on + strand at 439.550 kb on - strand at 439.550 kb on - strand at 439.550 kb on - strand at 439.550 kb on - strand at 439.551 kb on + strand at 439.551 kb on + strand at 439.551 kb on + strand at 439.551 kb on + strand at 439.552 kb on - strand at 439.582 kb on + strand at 439.638 kb on + strand at 439.858 kb on - strand at 439.862 kb on - strand at 439.862 kb on - strand at 439.863 kb on + strand at 440.058 kb on - strand at 440.059 kb on + strand at 440.066 kb on + strand at 440.080 kb on + strand at 440.181 kb on - strand at 440.210 kb on - strand at 440.216 kb on - strand at 440.337 kb on + strand, within MMP_RS02340 at 440.390 kb on - strand, within MMP_RS02340 at 440.391 kb on + strand, within MMP_RS02340 at 440.401 kb on - strand, within MMP_RS02340 at 440.415 kb on - strand at 440.420 kb on + strand at 440.439 kb on - strand at 440.441 kb on - strand at 440.441 kb on - strand at 440.457 kb on + strand at 440.460 kb on - strand at 440.475 kb on - strand at 440.530 kb on + strand, within MMP_RS02345 at 440.587 kb on - strand, within MMP_RS02345 at 440.587 kb on - strand, within MMP_RS02345 at 440.587 kb on - strand, within MMP_RS02345 at 440.601 kb on - strand, within MMP_RS02345 at 440.740 kb on + strand, within MMP_RS02345 at 440.808 kb on + strand, within MMP_RS02345 at 440.951 kb on + strand at 440.966 kb on + strand at 441.254 kb on - strand at 441.292 kb on + strand, within MMP_RS02355 at 441.316 kb on - strand, within MMP_RS02355 at 441.359 kb on + strand, within MMP_RS02355 at 441.465 kb on + strand at 441.507 kb on + strand at 441.527 kb on - strand at 441.538 kb on - strand at 441.538 kb on - strand at 441.544 kb on - strand at 441.545 kb on + strand at 441.548 kb on - strand at 441.602 kb on - strand, within MMP_RS02360 at 441.602 kb on - strand, within MMP_RS02360 at 441.602 kb on - strand, within MMP_RS02360 at 441.603 kb on + strand, within MMP_RS02360 at 441.604 kb on - strand, within MMP_RS02360 at 441.604 kb on - strand, within MMP_RS02360 at 441.605 kb on + strand, within MMP_RS02360 at 441.799 kb on + strand at 441.801 kb on + strand at 441.812 kb on - strand at 441.827 kb on + strand at 441.840 kb on - strand at 441.841 kb on + strand at 441.847 kb on - strand at 441.859 kb on - strand at 441.859 kb on - strand at 441.878 kb on - strand at 441.879 kb on + strand
Per-strain Table
Position Strand Gene LocusTag Fraction Mixed culture; Syntrophotalea carbinolica 1:1 starting OD to methanogen; 1,3-Propanediol_timecourse1; 20 generations remove 439,508 + +0.3 439,509 - +0.1 439,530 + +0.6 439,534 + -0.9 439,548 - -5.5 439,549 + -2.3 439,549 + -2.3 439,550 - -6.1 439,550 - -4.4 439,550 - -4.5 439,550 - -5.2 439,551 + -4.4 439,551 + -4.6 439,551 + -4.6 439,551 + -3.4 439,552 - -4.9 439,582 + -2.4 439,638 + -5.2 439,858 - -3.9 439,862 - -4.5 439,862 - -4.2 439,863 + -3.2 440,058 - -4.8 440,059 + -4.7 440,066 + -5.2 440,080 + -4.4 440,181 - -4.7 440,210 - -6.2 440,216 - -7.0 440,337 + MMP_RS02340 0.52 -3.0 440,390 - MMP_RS02340 0.82 -2.7 440,391 + MMP_RS02340 0.82 -2.4 440,401 - MMP_RS02340 0.88 -5.0 440,415 - -2.3 440,420 + -0.7 440,439 - -5.0 440,441 - -4.2 440,441 - -4.6 440,457 + -7.6 440,460 - -5.1 440,475 - -4.7 440,530 + MMP_RS02345 0.16 -3.7 440,587 - MMP_RS02345 0.28 -4.6 440,587 - MMP_RS02345 0.28 -4.7 440,587 - MMP_RS02345 0.28 -6.1 440,601 - MMP_RS02345 0.31 -4.1 440,740 + MMP_RS02345 0.60 -2.2 440,808 + MMP_RS02345 0.74 -4.1 440,951 + -1.0 440,966 + -3.5 441,254 - -7.5 441,292 + MMP_RS02355 0.23 -3.7 441,316 - MMP_RS02355 0.34 -5.1 441,359 + MMP_RS02355 0.55 -4.5 441,465 + +0.2 441,507 + +0.1 441,527 - -0.5 441,538 - +0.2 441,538 - +0.2 441,544 - +0.0 441,545 + +0.6 441,548 - -1.1 441,602 - MMP_RS02360 0.23 -0.4 441,602 - MMP_RS02360 0.23 -0.0 441,602 - MMP_RS02360 0.23 -0.1 441,603 + MMP_RS02360 0.24 +0.2 441,604 - MMP_RS02360 0.24 +0.7 441,604 - MMP_RS02360 0.24 -0.0 441,605 + MMP_RS02360 0.24 +0.1 441,799 + +0.5 441,801 + +0.2 441,812 - -0.6 441,827 + +1.1 441,840 - -0.3 441,841 + +0.4 441,847 - +0.5 441,859 - +0.4 441,859 - +1.1 441,878 - +0.5 441,879 + -0.1
Or see this region's nucleotide sequence