Experiment: Stem-Atlantic
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 DDA3937_RS18965 and DDA3937_RS18970 overlap by 8 nucleotides DDA3937_RS18970 and DDA3937_RS18975 are separated by 12 nucleotides DDA3937_RS18975 and DDA3937_RS18980 are separated by 14 nucleotides DDA3937_RS18980 and DDA3937_RS18985 are separated by 156 nucleotides
DDA3937_RS18965: DDA3937_RS18965 - fumarate reductase (quinol) flavoprotein subunit, at 4,334,817 to 4,336,613
_RS18965
DDA3937_RS18970: DDA3937_RS18970 - succinate dehydrogenase/fumarate reductase iron-sulfur subunit, at 4,336,606 to 4,337,340
_RS18970
DDA3937_RS18975: DDA3937_RS18975 - fumarate reductase subunit FrdC, at 4,337,353 to 4,337,748
_RS18975
DDA3937_RS18980: DDA3937_RS18980 - fumarate reductase subunit FrdD, at 4,337,763 to 4,338,119
_RS18980
DDA3937_RS18985: DDA3937_RS18985 - outer membrane lipoprotein Blc, at 4,338,276 to 4,338,815
_RS18985
Position (kb) 4337
4338 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3
4 at 4336.370 kb on + strand, within DDA3937_RS18965 at 4336.370 kb on + strand, within DDA3937_RS18965 at 4336.370 kb on + strand, within DDA3937_RS18965 at 4336.370 kb on + strand, within DDA3937_RS18965 at 4336.371 kb on - strand, within DDA3937_RS18965 at 4336.371 kb on - strand, within DDA3937_RS18965 at 4336.371 kb on - strand, within DDA3937_RS18965 at 4336.371 kb on - strand, within DDA3937_RS18965 at 4336.482 kb on + strand at 4336.483 kb on - strand at 4336.512 kb on + strand at 4336.612 kb on + strand at 4336.614 kb on + strand at 4336.645 kb on + strand at 4336.645 kb on + strand at 4336.646 kb on - strand at 4336.646 kb on - strand at 4336.646 kb on - strand at 4336.646 kb on - strand at 4336.648 kb on - strand at 4336.684 kb on + strand, within DDA3937_RS18970 at 4336.684 kb on + strand at 4336.696 kb on + strand, within DDA3937_RS18970 at 4336.696 kb on + strand, within DDA3937_RS18970 at 4336.697 kb on - strand, within DDA3937_RS18970 at 4336.697 kb on - strand, within DDA3937_RS18970 at 4336.697 kb on - strand, within DDA3937_RS18970 at 4336.699 kb on - strand, within DDA3937_RS18970 at 4336.732 kb on + strand, within DDA3937_RS18970 at 4336.732 kb on + strand, within DDA3937_RS18970 at 4336.733 kb on - strand, within DDA3937_RS18970 at 4336.733 kb on - strand, within DDA3937_RS18970 at 4336.765 kb on + strand, within DDA3937_RS18970 at 4336.766 kb on - strand at 4336.839 kb on + strand, within DDA3937_RS18970 at 4336.839 kb on + strand, within DDA3937_RS18970 at 4336.839 kb on + strand, within DDA3937_RS18970 at 4336.840 kb on - strand, within DDA3937_RS18970 at 4336.859 kb on - strand, within DDA3937_RS18970 at 4336.859 kb on - strand, within DDA3937_RS18970 at 4336.859 kb on - strand, within DDA3937_RS18970 at 4336.890 kb on + strand, within DDA3937_RS18970 at 4336.962 kb on + strand, within DDA3937_RS18970 at 4336.963 kb on + strand, within DDA3937_RS18970 at 4336.963 kb on + strand, within DDA3937_RS18970 at 4336.963 kb on + strand, within DDA3937_RS18970 at 4336.963 kb on + strand, within DDA3937_RS18970 at 4336.963 kb on + strand, within DDA3937_RS18970 at 4336.963 kb on + strand, within DDA3937_RS18970 at 4336.963 kb on + strand, within DDA3937_RS18970 at 4336.963 kb on + strand, within DDA3937_RS18970 at 4336.963 kb on + strand, within DDA3937_RS18970 at 4336.964 kb on - strand, within DDA3937_RS18970 at 4336.964 kb on - strand, within DDA3937_RS18970 at 4336.964 kb on - strand, within DDA3937_RS18970 at 4336.964 kb on - strand, within DDA3937_RS18970 at 4336.964 kb on - strand, within DDA3937_RS18970 at 4336.964 kb on - strand, within DDA3937_RS18970 at 4336.964 kb on - strand, within DDA3937_RS18970 at 4336.964 kb on - strand, within DDA3937_RS18970 at 4336.964 kb on - strand, within DDA3937_RS18970 at 4336.964 kb on - strand, within DDA3937_RS18970 at 4336.965 kb on + strand, within DDA3937_RS18970 at 4336.965 kb on + strand, within DDA3937_RS18970 at 4336.966 kb on - strand, within DDA3937_RS18970 at 4336.966 kb on - strand, within DDA3937_RS18970 at 4336.966 kb on - strand, within DDA3937_RS18970 at 4336.966 kb on - strand, within DDA3937_RS18970 at 4336.966 kb on - strand, within DDA3937_RS18970 at 4336.966 kb on - strand, within DDA3937_RS18970 at 4337.032 kb on + strand, within DDA3937_RS18970 at 4337.032 kb on + strand, within DDA3937_RS18970 at 4337.032 kb on + strand, within DDA3937_RS18970 at 4337.033 kb on - strand, within DDA3937_RS18970 at 4337.033 kb on - strand, within DDA3937_RS18970 at 4337.033 kb on - strand, within DDA3937_RS18970 at 4337.033 kb on - strand, within DDA3937_RS18970 at 4337.144 kb on - strand, within DDA3937_RS18970 at 4337.181 kb on + strand, within DDA3937_RS18970 at 4337.182 kb on - strand, within DDA3937_RS18970 at 4337.182 kb on - strand, within DDA3937_RS18970 at 4337.220 kb on + strand, within DDA3937_RS18970 at 4337.221 kb on - strand, within DDA3937_RS18970 at 4337.233 kb on + strand, within DDA3937_RS18970 at 4337.290 kb on - strand at 4337.338 kb on + strand at 4337.339 kb on - strand at 4337.367 kb on + strand at 4337.368 kb on - strand at 4337.374 kb on + strand at 4337.374 kb on + strand at 4337.374 kb on + strand at 4337.374 kb on + strand at 4337.374 kb on + strand at 4337.374 kb on + strand at 4337.374 kb on + strand at 4337.375 kb on - strand at 4337.375 kb on - strand at 4337.375 kb on - strand at 4337.375 kb on - strand at 4337.375 kb on - strand at 4337.428 kb on + strand, within DDA3937_RS18975 at 4337.428 kb on + strand, within DDA3937_RS18975 at 4337.428 kb on + strand, within DDA3937_RS18975 at 4337.428 kb on + strand, within DDA3937_RS18975 at 4337.428 kb on + strand, within DDA3937_RS18975 at 4337.428 kb on + strand, within DDA3937_RS18975 at 4337.428 kb on + strand, within DDA3937_RS18975 at 4337.428 kb on + strand, within DDA3937_RS18975 at 4337.428 kb on + strand, within DDA3937_RS18975 at 4337.428 kb on + strand, within DDA3937_RS18975 at 4337.428 kb on + strand at 4337.428 kb on + strand, within DDA3937_RS18975 at 4337.429 kb on - strand, within DDA3937_RS18975 at 4337.429 kb on - strand, within DDA3937_RS18975 at 4337.429 kb on - strand, within DDA3937_RS18975 at 4337.429 kb on - strand, within DDA3937_RS18975 at 4337.429 kb on - strand, within DDA3937_RS18975 at 4337.430 kb on + strand, within DDA3937_RS18975 at 4337.430 kb on + strand, within DDA3937_RS18975 at 4337.431 kb on - strand, within DDA3937_RS18975 at 4337.431 kb on - strand, within DDA3937_RS18975 at 4337.648 kb on + strand, within DDA3937_RS18975 at 4337.649 kb on - strand, within DDA3937_RS18975 at 4337.913 kb on + strand, within DDA3937_RS18980 at 4337.913 kb on + strand, within DDA3937_RS18980 at 4337.914 kb on - strand, within DDA3937_RS18980 at 4337.914 kb on - strand, within DDA3937_RS18980 at 4337.914 kb on - strand, within DDA3937_RS18980 at 4337.914 kb on - strand, within DDA3937_RS18980 at 4337.939 kb on + strand, within DDA3937_RS18980 at 4338.063 kb on + strand, within DDA3937_RS18980 at 4338.063 kb on + strand, within DDA3937_RS18980 at 4338.063 kb on + strand, within DDA3937_RS18980 at 4338.117 kb on + strand at 4338.117 kb on + strand at 4338.117 kb on + strand at 4338.118 kb on - strand at 4338.118 kb on - strand at 4338.118 kb on - strand at 4338.118 kb on - strand at 4338.165 kb on - strand at 4338.235 kb on - strand at 4338.240 kb on + strand at 4338.282 kb on + strand at 4338.282 kb on + strand at 4338.282 kb on + strand at 4338.283 kb on - strand at 4338.295 kb on + strand at 4338.296 kb on - strand at 4338.296 kb on - strand at 4338.387 kb on + strand, within DDA3937_RS18985 at 4338.387 kb on + strand, within DDA3937_RS18985 at 4338.388 kb on - strand, within DDA3937_RS18985 at 4338.390 kb on - strand, within DDA3937_RS18985 at 4338.403 kb on - strand, within DDA3937_RS18985 at 4338.462 kb on + strand, within DDA3937_RS18985 at 4338.462 kb on + strand, within DDA3937_RS18985 at 4338.462 kb on + strand, within DDA3937_RS18985 at 4338.462 kb on + strand, within DDA3937_RS18985 at 4338.463 kb on - strand, within DDA3937_RS18985 at 4338.463 kb on - strand, within DDA3937_RS18985 at 4338.463 kb on - strand, within DDA3937_RS18985 at 4338.463 kb on - strand, within DDA3937_RS18985 at 4338.463 kb on - strand, within DDA3937_RS18985 at 4338.463 kb on - strand, within DDA3937_RS18985 at 4338.552 kb on + strand, within DDA3937_RS18985 at 4338.552 kb on + strand, within DDA3937_RS18985 at 4338.552 kb on + strand, within DDA3937_RS18985 at 4338.552 kb on + strand, within DDA3937_RS18985 at 4338.553 kb on - strand, within DDA3937_RS18985 at 4338.553 kb on - strand, within DDA3937_RS18985 at 4338.609 kb on + strand, within DDA3937_RS18985 at 4338.619 kb on - strand, within DDA3937_RS18985 at 4338.619 kb on - strand, within DDA3937_RS18985 at 4338.619 kb on - strand, within DDA3937_RS18985 at 4338.621 kb on - strand, within DDA3937_RS18985 at 4338.625 kb on + strand, within DDA3937_RS18985 at 4338.625 kb on + strand, within DDA3937_RS18985 at 4338.625 kb on + strand, within DDA3937_RS18985 at 4338.626 kb on - strand, within DDA3937_RS18985 at 4338.626 kb on - strand, within DDA3937_RS18985 at 4338.626 kb on - strand at 4338.626 kb on - strand, within DDA3937_RS18985 at 4338.626 kb on - strand, within DDA3937_RS18985 at 4338.645 kb on + strand, within DDA3937_RS18985 at 4338.681 kb on + strand, within DDA3937_RS18985 at 4338.681 kb on + strand, within DDA3937_RS18985 at 4338.682 kb on - strand, within DDA3937_RS18985 at 4338.682 kb on - strand, within DDA3937_RS18985 at 4338.682 kb on - strand, within DDA3937_RS18985
Per-strain Table
Position Strand Gene LocusTag Fraction Stem-Atlantic remove 4,336,370 + DDA3937_RS18965 0.86 -0.3 4,336,370 + DDA3937_RS18965 0.86 -1.9 4,336,370 + DDA3937_RS18965 0.86 -0.8 4,336,370 + DDA3937_RS18965 0.86 +0.4 4,336,371 - DDA3937_RS18965 0.86 +0.3 4,336,371 - DDA3937_RS18965 0.86 -0.1 4,336,371 - DDA3937_RS18965 0.86 -2.1 4,336,371 - DDA3937_RS18965 0.86 -1.0 4,336,482 + -1.7 4,336,483 - -1.1 4,336,512 + -2.6 4,336,612 + -0.3 4,336,614 + -0.3 4,336,645 + +0.2 4,336,645 + -0.6 4,336,646 - -0.1 4,336,646 - +1.8 4,336,646 - -0.1 4,336,646 - +0.7 4,336,648 - -0.4 4,336,684 + DDA3937_RS18970 0.11 -2.4 4,336,684 + -1.7 4,336,696 + DDA3937_RS18970 0.12 +0.7 4,336,696 + DDA3937_RS18970 0.12 +2.0 4,336,697 - DDA3937_RS18970 0.12 +0.3 4,336,697 - DDA3937_RS18970 0.12 -0.2 4,336,697 - DDA3937_RS18970 0.12 -1.8 4,336,699 - DDA3937_RS18970 0.13 -1.5 4,336,732 + DDA3937_RS18970 0.17 -3.9 4,336,732 + DDA3937_RS18970 0.17 -0.2 4,336,733 - DDA3937_RS18970 0.17 +0.4 4,336,733 - DDA3937_RS18970 0.17 -0.2 4,336,765 + DDA3937_RS18970 0.22 +0.8 4,336,766 - +1.5 4,336,839 + DDA3937_RS18970 0.32 -0.1 4,336,839 + DDA3937_RS18970 0.32 +1.5 4,336,839 + DDA3937_RS18970 0.32 -0.9 4,336,840 - DDA3937_RS18970 0.32 +1.3 4,336,859 - DDA3937_RS18970 0.34 -0.1 4,336,859 - DDA3937_RS18970 0.34 -1.5 4,336,859 - DDA3937_RS18970 0.34 -1.1 4,336,890 + DDA3937_RS18970 0.39 -1.2 4,336,962 + DDA3937_RS18970 0.48 +3.4 4,336,963 + DDA3937_RS18970 0.49 -0.3 4,336,963 + DDA3937_RS18970 0.49 -0.3 4,336,963 + DDA3937_RS18970 0.49 +3.7 4,336,963 + DDA3937_RS18970 0.49 -1.7 4,336,963 + DDA3937_RS18970 0.49 +0.2 4,336,963 + DDA3937_RS18970 0.49 -1.3 4,336,963 + DDA3937_RS18970 0.49 +0.0 4,336,963 + DDA3937_RS18970 0.49 -1.1 4,336,963 + DDA3937_RS18970 0.49 -1.0 4,336,964 - DDA3937_RS18970 0.49 -1.2 4,336,964 - DDA3937_RS18970 0.49 +3.2 4,336,964 - DDA3937_RS18970 0.49 +0.1 4,336,964 - DDA3937_RS18970 0.49 -1.0 4,336,964 - DDA3937_RS18970 0.49 -2.3 4,336,964 - DDA3937_RS18970 0.49 +0.0 4,336,964 - DDA3937_RS18970 0.49 -0.6 4,336,964 - DDA3937_RS18970 0.49 -1.0 4,336,964 - DDA3937_RS18970 0.49 +0.2 4,336,964 - DDA3937_RS18970 0.49 -1.2 4,336,965 + DDA3937_RS18970 0.49 +0.9 4,336,965 + DDA3937_RS18970 0.49 +1.3 4,336,966 - DDA3937_RS18970 0.49 -1.3 4,336,966 - DDA3937_RS18970 0.49 +3.9 4,336,966 - DDA3937_RS18970 0.49 -1.3 4,336,966 - DDA3937_RS18970 0.49 -0.9 4,336,966 - DDA3937_RS18970 0.49 +0.5 4,336,966 - DDA3937_RS18970 0.49 -2.1 4,337,032 + DDA3937_RS18970 0.58 -1.5 4,337,032 + DDA3937_RS18970 0.58 -2.5 4,337,032 + DDA3937_RS18970 0.58 -2.0 4,337,033 - DDA3937_RS18970 0.58 -0.9 4,337,033 - DDA3937_RS18970 0.58 -0.9 4,337,033 - DDA3937_RS18970 0.58 -0.3 4,337,033 - DDA3937_RS18970 0.58 -0.0 4,337,144 - DDA3937_RS18970 0.73 -1.1 4,337,181 + DDA3937_RS18970 0.78 -2.5 4,337,182 - DDA3937_RS18970 0.78 -0.4 4,337,182 - DDA3937_RS18970 0.78 +2.2 4,337,220 + DDA3937_RS18970 0.84 -0.2 4,337,221 - DDA3937_RS18970 0.84 -1.6 4,337,233 + DDA3937_RS18970 0.85 -2.0 4,337,290 - -0.9 4,337,338 + +0.3 4,337,339 - -1.5 4,337,367 + +0.3 4,337,368 - +2.8 4,337,374 + -0.2 4,337,374 + +3.3 4,337,374 + -0.7 4,337,374 + +1.5 4,337,374 + +0.5 4,337,374 + -0.2 4,337,374 + -0.7 4,337,375 - +0.5 4,337,375 - +0.8 4,337,375 - -1.4 4,337,375 - +0.8 4,337,375 - +0.0 4,337,428 + DDA3937_RS18975 0.19 -3.2 4,337,428 + DDA3937_RS18975 0.19 -0.5 4,337,428 + DDA3937_RS18975 0.19 -0.3 4,337,428 + DDA3937_RS18975 0.19 +0.8 4,337,428 + DDA3937_RS18975 0.19 +0.4 4,337,428 + DDA3937_RS18975 0.19 -0.1 4,337,428 + DDA3937_RS18975 0.19 -0.1 4,337,428 + DDA3937_RS18975 0.19 +0.8 4,337,428 + DDA3937_RS18975 0.19 -1.8 4,337,428 + DDA3937_RS18975 0.19 -1.3 4,337,428 + -1.1 4,337,428 + DDA3937_RS18975 0.19 -0.3 4,337,429 - DDA3937_RS18975 0.19 -1.3 4,337,429 - DDA3937_RS18975 0.19 +0.1 4,337,429 - DDA3937_RS18975 0.19 -1.5 4,337,429 - DDA3937_RS18975 0.19 -3.0 4,337,429 - DDA3937_RS18975 0.19 -1.0 4,337,430 + DDA3937_RS18975 0.19 +0.3 4,337,430 + DDA3937_RS18975 0.19 +1.9 4,337,431 - DDA3937_RS18975 0.20 -0.2 4,337,431 - DDA3937_RS18975 0.20 +0.4 4,337,648 + DDA3937_RS18975 0.74 -0.1 4,337,649 - DDA3937_RS18975 0.75 -0.6 4,337,913 + DDA3937_RS18980 0.42 -2.4 4,337,913 + DDA3937_RS18980 0.42 +0.2 4,337,914 - DDA3937_RS18980 0.42 -0.8 4,337,914 - DDA3937_RS18980 0.42 -0.8 4,337,914 - DDA3937_RS18980 0.42 -0.5 4,337,914 - DDA3937_RS18980 0.42 -1.5 4,337,939 + DDA3937_RS18980 0.49 -0.5 4,338,063 + DDA3937_RS18980 0.84 -0.5 4,338,063 + DDA3937_RS18980 0.84 +2.0 4,338,063 + DDA3937_RS18980 0.84 +2.8 4,338,117 + +1.2 4,338,117 + -0.5 4,338,117 + -0.5 4,338,118 - -1.0 4,338,118 - -1.1 4,338,118 - -0.9 4,338,118 - -1.8 4,338,165 - -0.7 4,338,235 - -1.5 4,338,240 + +2.0 4,338,282 + -0.5 4,338,282 + -0.5 4,338,282 + +1.9 4,338,283 - +0.5 4,338,295 + -2.8 4,338,296 - +1.3 4,338,296 - -0.3 4,338,387 + DDA3937_RS18985 0.21 +3.7 4,338,387 + DDA3937_RS18985 0.21 -0.6 4,338,388 - DDA3937_RS18985 0.21 +0.1 4,338,390 - DDA3937_RS18985 0.21 +0.9 4,338,403 - DDA3937_RS18985 0.24 +1.5 4,338,462 + DDA3937_RS18985 0.34 -0.6 4,338,462 + DDA3937_RS18985 0.34 +2.0 4,338,462 + DDA3937_RS18985 0.34 +1.0 4,338,462 + DDA3937_RS18985 0.34 -2.4 4,338,463 - DDA3937_RS18985 0.35 +4.0 4,338,463 - DDA3937_RS18985 0.35 +0.3 4,338,463 - DDA3937_RS18985 0.35 -1.3 4,338,463 - DDA3937_RS18985 0.35 +0.9 4,338,463 - DDA3937_RS18985 0.35 -2.2 4,338,463 - DDA3937_RS18985 0.35 -0.6 4,338,552 + DDA3937_RS18985 0.51 -0.5 4,338,552 + DDA3937_RS18985 0.51 -1.0 4,338,552 + DDA3937_RS18985 0.51 +0.3 4,338,552 + DDA3937_RS18985 0.51 -1.5 4,338,553 - DDA3937_RS18985 0.51 -0.9 4,338,553 - DDA3937_RS18985 0.51 +0.6 4,338,609 + DDA3937_RS18985 0.62 -1.3 4,338,619 - DDA3937_RS18985 0.64 +0.4 4,338,619 - DDA3937_RS18985 0.64 +1.5 4,338,619 - DDA3937_RS18985 0.64 +1.0 4,338,621 - DDA3937_RS18985 0.64 -1.3 4,338,625 + DDA3937_RS18985 0.65 -0.1 4,338,625 + DDA3937_RS18985 0.65 +0.8 4,338,625 + DDA3937_RS18985 0.65 +0.7 4,338,626 - DDA3937_RS18985 0.65 -0.8 4,338,626 - DDA3937_RS18985 0.65 -0.1 4,338,626 - -1.1 4,338,626 - DDA3937_RS18985 0.65 +1.9 4,338,626 - DDA3937_RS18985 0.65 +1.0 4,338,645 + DDA3937_RS18985 0.68 -0.2 4,338,681 + DDA3937_RS18985 0.75 -0.3 4,338,681 + DDA3937_RS18985 0.75 +1.3 4,338,682 - DDA3937_RS18985 0.75 +1.3 4,338,682 - DDA3937_RS18985 0.75 +2.9 4,338,682 - DDA3937_RS18985 0.75 -0.5
Or see this region's nucleotide sequence