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_RS07325 and MMP_RS07330 are separated by 96 nucleotides MMP_RS07330 and MMP_RS07335 are separated by 112 nucleotides MMP_RS07335 and MMP_RS07340 are separated by 23 nucleotides
MMP_RS07325: MMP_RS07325 - glycosyl transferase, at 1,394,610 to 1,395,509
_RS07325
MMP_RS07330: MMP_RS07330 - membrane protein, at 1,395,606 to 1,398,164
_RS07330
MMP_RS07335: MMP_RS07335 - tRNA (cytidine(56)-2'-O)-methyltransferase, at 1,398,277 to 1,398,816
_RS07335
MMP_RS07340: MMP_RS07340 - dCTP deaminase, at 1,398,840 to 1,399,460
_RS07340
Position (kb)
1395
1396
1397
1398
1399 Strain fitness (log2 ratio)
-7
-6
-5
-4
-3
-2
-1
0
1 at 1394.644 kb on + strand at 1394.692 kb on + strand at 1394.702 kb on + strand at 1394.799 kb on - strand at 1394.985 kb on - strand at 1394.986 kb on + strand at 1395.039 kb on + strand at 1395.421 kb on - strand at 1395.490 kb on + strand at 1395.523 kb on + strand at 1395.523 kb on + strand at 1395.523 kb on + strand at 1395.528 kb on + strand at 1395.554 kb on - strand at 1395.555 kb on + strand at 1395.558 kb on - strand at 1395.558 kb on - strand at 1395.559 kb on + strand at 1395.560 kb on - strand at 1395.561 kb on + strand at 1395.561 kb on + strand at 1395.561 kb on + strand at 1395.561 kb on + strand at 1395.563 kb on + strand at 1395.564 kb on - strand at 1395.564 kb on - strand at 1395.564 kb on - strand at 1395.565 kb on + strand at 1395.565 kb on + strand at 1395.565 kb on + strand at 1395.565 kb on + strand at 1395.758 kb on - strand at 1395.758 kb on - strand at 1395.787 kb on + strand at 1395.787 kb on + strand at 1395.960 kb on + strand, within MMP_RS07330 at 1396.053 kb on + strand, within MMP_RS07330 at 1396.106 kb on - strand, within MMP_RS07330 at 1396.106 kb on - strand, within MMP_RS07330 at 1396.107 kb on + strand, within MMP_RS07330 at 1396.107 kb on + strand, within MMP_RS07330 at 1396.157 kb on + strand, within MMP_RS07330 at 1396.158 kb on - strand, within MMP_RS07330 at 1396.158 kb on - strand, within MMP_RS07330 at 1396.159 kb on + strand, within MMP_RS07330 at 1396.159 kb on + strand, within MMP_RS07330 at 1396.160 kb on - strand, within MMP_RS07330 at 1396.201 kb on - strand, within MMP_RS07330 at 1396.213 kb on - strand, within MMP_RS07330 at 1396.222 kb on - strand, within MMP_RS07330 at 1396.311 kb on - strand, within MMP_RS07330 at 1396.370 kb on + strand, within MMP_RS07330 at 1396.372 kb on - strand, within MMP_RS07330 at 1396.372 kb on - strand, within MMP_RS07330 at 1396.373 kb on + strand, within MMP_RS07330 at 1396.374 kb on - strand, within MMP_RS07330 at 1396.374 kb on - strand, within MMP_RS07330 at 1396.383 kb on - strand, within MMP_RS07330 at 1396.383 kb on - strand, within MMP_RS07330 at 1396.384 kb on + strand, within MMP_RS07330 at 1396.394 kb on + strand, within MMP_RS07330 at 1396.394 kb on + strand, within MMP_RS07330 at 1396.394 kb on + strand, within MMP_RS07330 at 1396.439 kb on - strand, within MMP_RS07330 at 1396.440 kb on + strand, within MMP_RS07330 at 1396.440 kb on + strand, within MMP_RS07330 at 1396.445 kb on + strand, within MMP_RS07330 at 1396.445 kb on + strand, within MMP_RS07330 at 1396.445 kb on + strand, within MMP_RS07330 at 1396.445 kb on + strand, within MMP_RS07330 at 1396.445 kb on + strand, within MMP_RS07330 at 1396.494 kb on + strand, within MMP_RS07330 at 1396.496 kb on - strand, within MMP_RS07330 at 1396.567 kb on - strand, within MMP_RS07330 at 1396.568 kb on + strand, within MMP_RS07330 at 1396.568 kb on + strand, within MMP_RS07330 at 1396.568 kb on + strand, within MMP_RS07330 at 1396.569 kb on - strand, within MMP_RS07330 at 1396.570 kb on + strand, within MMP_RS07330 at 1396.571 kb on - strand, within MMP_RS07330 at 1396.851 kb on + strand, within MMP_RS07330 at 1396.882 kb on - strand, within MMP_RS07330 at 1396.883 kb on + strand, within MMP_RS07330 at 1396.883 kb on + strand, within MMP_RS07330 at 1396.883 kb on + strand, within MMP_RS07330 at 1396.885 kb on - strand, within MMP_RS07330 at 1396.926 kb on + strand, within MMP_RS07330 at 1396.951 kb on - strand, within MMP_RS07330 at 1396.951 kb on - strand, within MMP_RS07330 at 1396.968 kb on - strand, within MMP_RS07330 at 1396.969 kb on + strand, within MMP_RS07330 at 1396.986 kb on - strand, within MMP_RS07330 at 1397.012 kb on + strand, within MMP_RS07330 at 1397.023 kb on + strand, within MMP_RS07330 at 1397.039 kb on + strand, within MMP_RS07330 at 1397.375 kb on - strand, within MMP_RS07330 at 1397.391 kb on - strand, within MMP_RS07330 at 1397.391 kb on - strand, within MMP_RS07330 at 1397.411 kb on + strand, within MMP_RS07330 at 1397.439 kb on + strand, within MMP_RS07330 at 1397.439 kb on + strand, within MMP_RS07330 at 1397.444 kb on + strand, within MMP_RS07330 at 1397.462 kb on + strand, within MMP_RS07330 at 1397.493 kb on + strand, within MMP_RS07330 at 1397.497 kb on - strand, within MMP_RS07330 at 1397.589 kb on - strand, within MMP_RS07330 at 1397.590 kb on + strand, within MMP_RS07330 at 1397.590 kb on + strand, within MMP_RS07330 at 1397.606 kb on - strand, within MMP_RS07330 at 1397.646 kb on + strand, within MMP_RS07330 at 1397.733 kb on + strand, within MMP_RS07330 at 1397.742 kb on - strand, within MMP_RS07330 at 1397.743 kb on + strand, within MMP_RS07330 at 1397.747 kb on + strand, within MMP_RS07330 at 1397.753 kb on + strand, within MMP_RS07330 at 1397.769 kb on - strand, within MMP_RS07330 at 1398.020 kb on - strand at 1398.021 kb on + strand at 1398.136 kb on - strand at 1398.163 kb on + strand at 1398.206 kb on + strand at 1398.291 kb on + strand at 1398.333 kb on - strand, within MMP_RS07335 at 1398.348 kb on + strand, within MMP_RS07335 at 1398.512 kb on - strand, within MMP_RS07335 at 1398.513 kb on + strand, within MMP_RS07335 at 1398.515 kb on - strand, within MMP_RS07335 at 1398.516 kb on + strand, within MMP_RS07335 at 1398.523 kb on + strand, within MMP_RS07335 at 1398.652 kb on - strand, within MMP_RS07335 at 1398.838 kb on + strand at 1398.838 kb on + strand at 1398.847 kb on - strand at 1398.871 kb on + strand at 1399.001 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 1,394,644 + -3.9 1,394,692 + -4.3 1,394,702 + -3.0 1,394,799 - -4.2 1,394,985 - -4.2 1,394,986 + -4.7 1,395,039 + -4.1 1,395,421 - -5.0 1,395,490 + -3.2 1,395,523 + -4.8 1,395,523 + -3.4 1,395,523 + -2.5 1,395,528 + -6.1 1,395,554 - -2.7 1,395,555 + -6.2 1,395,558 - -2.2 1,395,558 - -4.0 1,395,559 + -0.6 1,395,560 - -4.7 1,395,561 + -1.3 1,395,561 + -2.4 1,395,561 + -2.2 1,395,561 + -1.8 1,395,563 + -2.0 1,395,564 - -3.5 1,395,564 - -2.8 1,395,564 - -4.4 1,395,565 + -1.5 1,395,565 + -1.4 1,395,565 + -2.2 1,395,565 + -2.6 1,395,758 - -3.2 1,395,758 - -5.6 1,395,787 + -3.8 1,395,787 + -3.5 1,395,960 + MMP_RS07330 0.14 -2.6 1,396,053 + MMP_RS07330 0.17 -3.5 1,396,106 - MMP_RS07330 0.20 -4.1 1,396,106 - MMP_RS07330 0.20 -2.3 1,396,107 + MMP_RS07330 0.20 -5.3 1,396,107 + MMP_RS07330 0.20 -3.0 1,396,157 + MMP_RS07330 0.22 -5.4 1,396,158 - MMP_RS07330 0.22 -5.1 1,396,158 - MMP_RS07330 0.22 -3.7 1,396,159 + MMP_RS07330 0.22 -2.1 1,396,159 + MMP_RS07330 0.22 -3.9 1,396,160 - MMP_RS07330 0.22 -4.0 1,396,201 - MMP_RS07330 0.23 -3.9 1,396,213 - MMP_RS07330 0.24 -4.9 1,396,222 - MMP_RS07330 0.24 -4.6 1,396,311 - MMP_RS07330 0.28 -2.4 1,396,370 + MMP_RS07330 0.30 -4.8 1,396,372 - MMP_RS07330 0.30 -4.1 1,396,372 - MMP_RS07330 0.30 -4.0 1,396,373 + MMP_RS07330 0.30 -4.3 1,396,374 - MMP_RS07330 0.30 -5.1 1,396,374 - MMP_RS07330 0.30 -5.1 1,396,383 - MMP_RS07330 0.30 -5.0 1,396,383 - MMP_RS07330 0.30 -3.6 1,396,384 + MMP_RS07330 0.30 -5.6 1,396,394 + MMP_RS07330 0.31 -5.5 1,396,394 + MMP_RS07330 0.31 -2.3 1,396,394 + MMP_RS07330 0.31 -4.0 1,396,439 - MMP_RS07330 0.33 -4.2 1,396,440 + MMP_RS07330 0.33 -4.7 1,396,440 + MMP_RS07330 0.33 -6.3 1,396,445 + MMP_RS07330 0.33 -5.3 1,396,445 + MMP_RS07330 0.33 -5.2 1,396,445 + MMP_RS07330 0.33 -5.1 1,396,445 + MMP_RS07330 0.33 -1.9 1,396,445 + MMP_RS07330 0.33 -2.5 1,396,494 + MMP_RS07330 0.35 -4.0 1,396,496 - MMP_RS07330 0.35 -3.7 1,396,567 - MMP_RS07330 0.38 -5.6 1,396,568 + MMP_RS07330 0.38 -3.7 1,396,568 + MMP_RS07330 0.38 -5.0 1,396,568 + MMP_RS07330 0.38 -5.8 1,396,569 - MMP_RS07330 0.38 -2.6 1,396,570 + MMP_RS07330 0.38 -4.9 1,396,571 - MMP_RS07330 0.38 -4.4 1,396,851 + MMP_RS07330 0.49 -4.4 1,396,882 - MMP_RS07330 0.50 -3.4 1,396,883 + MMP_RS07330 0.50 -5.3 1,396,883 + MMP_RS07330 0.50 -5.3 1,396,883 + MMP_RS07330 0.50 -3.5 1,396,885 - MMP_RS07330 0.50 -4.2 1,396,926 + MMP_RS07330 0.52 -1.2 1,396,951 - MMP_RS07330 0.53 -3.3 1,396,951 - MMP_RS07330 0.53 -6.0 1,396,968 - MMP_RS07330 0.53 -4.0 1,396,969 + MMP_RS07330 0.53 -6.1 1,396,986 - MMP_RS07330 0.54 -6.9 1,397,012 + MMP_RS07330 0.55 -4.1 1,397,023 + MMP_RS07330 0.55 -4.9 1,397,039 + MMP_RS07330 0.56 -6.8 1,397,375 - MMP_RS07330 0.69 -4.8 1,397,391 - MMP_RS07330 0.70 -4.6 1,397,391 - MMP_RS07330 0.70 -3.9 1,397,411 + MMP_RS07330 0.71 -4.0 1,397,439 + MMP_RS07330 0.72 -4.2 1,397,439 + MMP_RS07330 0.72 -5.9 1,397,444 + MMP_RS07330 0.72 -4.2 1,397,462 + MMP_RS07330 0.73 -3.9 1,397,493 + MMP_RS07330 0.74 -5.3 1,397,497 - MMP_RS07330 0.74 -3.9 1,397,589 - MMP_RS07330 0.77 -3.6 1,397,590 + MMP_RS07330 0.78 -6.1 1,397,590 + MMP_RS07330 0.78 -4.9 1,397,606 - MMP_RS07330 0.78 -4.8 1,397,646 + MMP_RS07330 0.80 -3.6 1,397,733 + MMP_RS07330 0.83 -1.3 1,397,742 - MMP_RS07330 0.83 -2.8 1,397,743 + MMP_RS07330 0.84 -5.0 1,397,747 + MMP_RS07330 0.84 -4.4 1,397,753 + MMP_RS07330 0.84 -4.9 1,397,769 - MMP_RS07330 0.85 -7.6 1,398,020 - -4.6 1,398,021 + -3.0 1,398,136 - -4.6 1,398,163 + +0.4 1,398,206 + +0.0 1,398,291 + -0.1 1,398,333 - MMP_RS07335 0.10 +0.2 1,398,348 + MMP_RS07335 0.13 +0.3 1,398,512 - MMP_RS07335 0.44 +1.0 1,398,513 + MMP_RS07335 0.44 +0.6 1,398,515 - MMP_RS07335 0.44 +1.0 1,398,516 + MMP_RS07335 0.44 +0.3 1,398,523 + MMP_RS07335 0.46 +0.4 1,398,652 - MMP_RS07335 0.69 -4.5 1,398,838 + -3.7 1,398,838 + -3.2 1,398,847 - -2.9 1,398,871 + -3.6 1,399,001 + -3.3
Or see this region's nucleotide sequence