Experiment: PYE with nitrite 5 mM
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 CCNA_00405 and CCNA_00406 are separated by 101 nucleotides CCNA_00406 and CCNA_00407 overlap by 11 nucleotides CCNA_00407 and CCNA_00408 are separated by 32 nucleotides CCNA_00408 and CCNA_00409 are separated by 97 nucleotides CCNA_00409 and CCNA_00410 are separated by 62 nucleotides CCNA_00410 and CCNA_00411 are separated by 32 nucleotides
CCNA_00405: CCNA_00405 - short chain dehydrogenase, at 421,211 to 422,068
_00405
CCNA_00406: CCNA_00406 - DNA transformation protein tfoX, at 422,170 to 422,538
_00406
CCNA_00407: CCNA_00407 - acetyltransferase, at 422,528 to 423,007
_00407
CCNA_00408: CCNA_00408 - antiporter protein, at 423,040 to 424,308
_00408
CCNA_00409: CCNA_00409 - hypothetical protein, at 424,406 to 424,450
_00409
CCNA_00410: CCNA_00410 - acetyltransferase, at 424,513 to 425,043
_00410
CCNA_00411: CCNA_00411 - hypothetical protein, at 425,076 to 425,639
_00411
Position (kb) 423
424
425 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3 at 422.068 kb on + strand at 422.085 kb on - strand at 422.092 kb on + strand at 422.100 kb on - strand at 422.101 kb on - strand at 422.101 kb on - strand at 422.113 kb on + strand at 422.113 kb on + strand at 422.113 kb on + strand at 422.186 kb on - strand at 422.191 kb on + strand at 422.248 kb on + strand, within CCNA_00406 at 422.259 kb on + strand at 422.267 kb on - strand, within CCNA_00406 at 422.268 kb on - strand, within CCNA_00406 at 422.291 kb on + strand, within CCNA_00406 at 422.291 kb on + strand, within CCNA_00406 at 422.291 kb on + strand, within CCNA_00406 at 422.299 kb on - strand, within CCNA_00406 at 422.299 kb on - strand, within CCNA_00406 at 422.300 kb on + strand, within CCNA_00406 at 422.308 kb on - strand, within CCNA_00406 at 422.308 kb on - strand, within CCNA_00406 at 422.314 kb on - strand, within CCNA_00406 at 422.314 kb on - strand, within CCNA_00406 at 422.315 kb on + strand, within CCNA_00406 at 422.325 kb on - strand, within CCNA_00406 at 422.333 kb on - strand, within CCNA_00406 at 422.333 kb on - strand, within CCNA_00406 at 422.362 kb on + strand, within CCNA_00406 at 422.368 kb on - strand, within CCNA_00406 at 422.370 kb on - strand, within CCNA_00406 at 422.419 kb on - strand, within CCNA_00406 at 422.419 kb on - strand, within CCNA_00406 at 422.424 kb on - strand, within CCNA_00406 at 422.442 kb on - strand, within CCNA_00406 at 422.442 kb on - strand, within CCNA_00406 at 422.462 kb on + strand, within CCNA_00406 at 422.462 kb on + strand, within CCNA_00406 at 422.470 kb on - strand at 422.470 kb on - strand, within CCNA_00406 at 422.503 kb on + strand at 422.557 kb on + strand at 422.581 kb on + strand, within CCNA_00407 at 422.586 kb on + strand, within CCNA_00407 at 422.596 kb on + strand, within CCNA_00407 at 422.614 kb on + strand, within CCNA_00407 at 422.622 kb on - strand, within CCNA_00407 at 422.622 kb on - strand, within CCNA_00407 at 422.622 kb on - strand, within CCNA_00407 at 422.622 kb on - strand, within CCNA_00407 at 422.624 kb on + strand, within CCNA_00407 at 422.624 kb on + strand, within CCNA_00407 at 422.649 kb on + strand, within CCNA_00407 at 422.656 kb on - strand, within CCNA_00407 at 422.662 kb on - strand, within CCNA_00407 at 422.718 kb on + strand, within CCNA_00407 at 422.726 kb on - strand, within CCNA_00407 at 422.726 kb on - strand, within CCNA_00407 at 422.731 kb on + strand, within CCNA_00407 at 422.742 kb on + strand, within CCNA_00407 at 422.772 kb on + strand, within CCNA_00407 at 422.772 kb on + strand, within CCNA_00407 at 422.774 kb on - strand, within CCNA_00407 at 422.783 kb on - strand, within CCNA_00407 at 422.808 kb on + strand, within CCNA_00407 at 422.813 kb on + strand, within CCNA_00407 at 422.814 kb on - strand, within CCNA_00407 at 422.816 kb on - strand, within CCNA_00407 at 422.872 kb on - strand, within CCNA_00407 at 422.872 kb on - strand, within CCNA_00407 at 422.872 kb on - strand at 422.872 kb on - strand, within CCNA_00407 at 422.872 kb on - strand, within CCNA_00407 at 422.872 kb on - strand, within CCNA_00407 at 422.888 kb on + strand, within CCNA_00407 at 422.896 kb on - strand, within CCNA_00407 at 422.896 kb on - strand, within CCNA_00407 at 422.896 kb on - strand, within CCNA_00407 at 422.924 kb on - strand, within CCNA_00407 at 422.958 kb on - strand, within CCNA_00407 at 422.959 kb on - strand, within CCNA_00407 at 423.001 kb on + strand at 423.009 kb on - strand at 423.009 kb on - strand at 423.025 kb on - strand at 423.037 kb on + strand at 423.037 kb on + strand at 423.037 kb on + strand at 423.045 kb on - strand at 423.045 kb on - strand at 423.066 kb on + strand at 423.074 kb on - strand at 423.158 kb on - strand at 423.162 kb on - strand at 423.166 kb on + strand at 423.166 kb on + strand at 423.174 kb on - strand, within CCNA_00408 at 423.174 kb on - strand, within CCNA_00408 at 423.258 kb on + strand, within CCNA_00408 at 423.258 kb on + strand, within CCNA_00408 at 423.276 kb on + strand, within CCNA_00408 at 423.276 kb on + strand, within CCNA_00408 at 423.289 kb on - strand, within CCNA_00408 at 423.301 kb on + strand, within CCNA_00408 at 423.309 kb on - strand, within CCNA_00408 at 423.314 kb on - strand, within CCNA_00408 at 423.332 kb on - strand, within CCNA_00408 at 423.337 kb on - strand, within CCNA_00408 at 423.346 kb on - strand, within CCNA_00408 at 423.346 kb on - strand, within CCNA_00408 at 423.346 kb on - strand, within CCNA_00408 at 423.346 kb on - strand, within CCNA_00408 at 423.358 kb on - strand, within CCNA_00408 at 423.400 kb on - strand, within CCNA_00408 at 423.400 kb on - strand, within CCNA_00408 at 423.435 kb on + strand, within CCNA_00408 at 423.458 kb on - strand, within CCNA_00408 at 423.473 kb on + strand, within CCNA_00408 at 423.478 kb on + strand, within CCNA_00408 at 423.481 kb on - strand, within CCNA_00408 at 423.483 kb on + strand, within CCNA_00408 at 423.483 kb on + strand, within CCNA_00408 at 423.491 kb on - strand, within CCNA_00408 at 423.491 kb on - strand, within CCNA_00408 at 423.491 kb on - strand, within CCNA_00408 at 423.491 kb on - strand, within CCNA_00408 at 423.505 kb on + strand, within CCNA_00408 at 423.505 kb on - strand, within CCNA_00408 at 423.513 kb on - strand, within CCNA_00408 at 423.513 kb on - strand, within CCNA_00408 at 423.558 kb on - strand, within CCNA_00408 at 423.558 kb on - strand, within CCNA_00408 at 423.570 kb on + strand, within CCNA_00408 at 423.578 kb on - strand, within CCNA_00408 at 423.591 kb on + strand, within CCNA_00408 at 423.596 kb on + strand, within CCNA_00408 at 423.626 kb on + strand, within CCNA_00408 at 423.626 kb on + strand, within CCNA_00408 at 423.626 kb on + strand at 423.626 kb on + strand, within CCNA_00408 at 423.626 kb on + strand, within CCNA_00408 at 423.634 kb on - strand, within CCNA_00408 at 423.634 kb on - strand, within CCNA_00408 at 423.634 kb on - strand, within CCNA_00408 at 423.673 kb on - strand, within CCNA_00408 at 423.680 kb on + strand, within CCNA_00408 at 423.699 kb on - strand, within CCNA_00408 at 423.707 kb on + strand, within CCNA_00408 at 423.711 kb on + strand, within CCNA_00408 at 423.711 kb on + strand, within CCNA_00408 at 423.711 kb on + strand, within CCNA_00408 at 423.719 kb on - strand, within CCNA_00408 at 423.719 kb on - strand, within CCNA_00408 at 423.719 kb on - strand, within CCNA_00408 at 423.719 kb on - strand, within CCNA_00408 at 423.736 kb on + strand, within CCNA_00408 at 423.738 kb on - strand, within CCNA_00408 at 423.772 kb on - strand, within CCNA_00408 at 423.800 kb on + strand, within CCNA_00408 at 423.800 kb on + strand, within CCNA_00408 at 423.808 kb on - strand, within CCNA_00408 at 423.822 kb on - strand, within CCNA_00408 at 423.856 kb on + strand, within CCNA_00408 at 423.912 kb on + strand, within CCNA_00408 at 423.951 kb on - strand, within CCNA_00408 at 423.958 kb on + strand, within CCNA_00408 at 423.966 kb on - strand, within CCNA_00408 at 423.973 kb on - strand, within CCNA_00408 at 423.975 kb on + strand, within CCNA_00408 at 423.975 kb on + strand, within CCNA_00408 at 423.996 kb on + strand, within CCNA_00408 at 424.002 kb on + strand, within CCNA_00408 at 424.054 kb on - strand, within CCNA_00408 at 424.059 kb on - strand, within CCNA_00408 at 424.064 kb on + strand, within CCNA_00408 at 424.076 kb on + strand, within CCNA_00408 at 424.092 kb on + strand, within CCNA_00408 at 424.159 kb on - strand, within CCNA_00408 at 424.159 kb on - strand, within CCNA_00408 at 424.159 kb on - strand, within CCNA_00408 at 424.168 kb on - strand, within CCNA_00408 at 424.199 kb on - strand at 424.205 kb on - strand at 424.205 kb on - strand at 424.205 kb on - strand at 424.217 kb on + strand at 424.217 kb on + strand at 424.217 kb on + strand at 424.217 kb on + strand at 424.217 kb on + strand at 424.217 kb on + strand at 424.217 kb on + strand at 424.222 kb on + strand at 424.225 kb on - strand at 424.225 kb on - strand at 424.225 kb on - strand at 424.225 kb on - strand at 424.230 kb on - strand at 424.230 kb on - strand at 424.264 kb on + strand at 424.342 kb on - strand at 424.346 kb on + strand at 424.363 kb on + strand at 424.365 kb on - strand at 424.368 kb on + strand at 424.369 kb on + strand at 424.369 kb on + strand at 424.369 kb on + strand at 424.369 kb on + strand at 424.369 kb on + strand at 424.369 kb on + strand at 424.371 kb on - strand at 424.377 kb on - strand at 424.377 kb on - strand at 424.377 kb on - strand at 424.404 kb on - strand at 424.445 kb on + strand, within CCNA_00409 at 424.452 kb on + strand at 424.465 kb on + strand at 424.473 kb on - strand at 424.473 kb on - strand at 424.481 kb on + strand at 424.489 kb on + strand at 424.530 kb on - strand at 424.728 kb on + strand, within CCNA_00410 at 424.795 kb on - strand, within CCNA_00410 at 424.999 kb on + strand at 425.010 kb on + strand at 425.024 kb on + strand at 425.032 kb on - strand at 425.066 kb on + strand at 425.073 kb on + strand at 425.081 kb on - strand at 425.088 kb on + strand at 425.088 kb on + strand at 425.088 kb on + strand at 425.088 kb on + strand at 425.088 kb on + strand at 425.088 kb on + strand at 425.090 kb on + strand at 425.090 kb on + strand at 425.090 kb on + strand at 425.090 kb on + strand at 425.096 kb on - strand at 425.096 kb on - strand at 425.100 kb on + strand at 425.100 kb on + strand at 425.100 kb on + strand at 425.103 kb on - strand at 425.110 kb on + strand at 425.120 kb on + strand at 425.140 kb on + strand, within CCNA_00411 at 425.165 kb on - strand, within CCNA_00411 at 425.221 kb on + strand, within CCNA_00411 at 425.248 kb on - strand, within CCNA_00411 at 425.299 kb on + strand, within CCNA_00411 at 425.299 kb on + strand, within CCNA_00411 at 425.307 kb on - strand, within CCNA_00411
Per-strain Table
Position Strand Gene LocusTag Fraction PYE with nitrite 5 mM remove 422,068 + -1.3 422,085 - -0.3 422,092 + -0.5 422,100 - -0.5 422,101 - -0.3 422,101 - -1.3 422,113 + +0.9 422,113 + -0.2 422,113 + +0.7 422,186 - -0.2 422,191 + -0.4 422,248 + CCNA_00406 0.21 -2.8 422,259 + +1.5 422,267 - CCNA_00406 0.26 +1.7 422,268 - CCNA_00406 0.27 -0.1 422,291 + CCNA_00406 0.33 +2.5 422,291 + CCNA_00406 0.33 -0.1 422,291 + CCNA_00406 0.33 -0.8 422,299 - CCNA_00406 0.35 -0.6 422,299 - CCNA_00406 0.35 -0.1 422,300 + CCNA_00406 0.35 +0.5 422,308 - CCNA_00406 0.37 -1.0 422,308 - CCNA_00406 0.37 -0.3 422,314 - CCNA_00406 0.39 -1.4 422,314 - CCNA_00406 0.39 -1.0 422,315 + CCNA_00406 0.39 +1.2 422,325 - CCNA_00406 0.42 +0.3 422,333 - CCNA_00406 0.44 -0.5 422,333 - CCNA_00406 0.44 +1.1 422,362 + CCNA_00406 0.52 +0.2 422,368 - CCNA_00406 0.54 +0.2 422,370 - CCNA_00406 0.54 -1.0 422,419 - CCNA_00406 0.67 -2.0 422,419 - CCNA_00406 0.67 +1.5 422,424 - CCNA_00406 0.69 -1.0 422,442 - CCNA_00406 0.74 -0.6 422,442 - CCNA_00406 0.74 -0.5 422,462 + CCNA_00406 0.79 -0.4 422,462 + CCNA_00406 0.79 -2.0 422,470 - +0.5 422,470 - CCNA_00406 0.81 -0.3 422,503 + -0.3 422,557 + -1.0 422,581 + CCNA_00407 0.11 -1.5 422,586 + CCNA_00407 0.12 +0.5 422,596 + CCNA_00407 0.14 +1.5 422,614 + CCNA_00407 0.18 -0.1 422,622 - CCNA_00407 0.20 +0.1 422,622 - CCNA_00407 0.20 -0.2 422,622 - CCNA_00407 0.20 +1.4 422,622 - CCNA_00407 0.20 -0.7 422,624 + CCNA_00407 0.20 -1.4 422,624 + CCNA_00407 0.20 +2.5 422,649 + CCNA_00407 0.25 -0.4 422,656 - CCNA_00407 0.27 -0.1 422,662 - CCNA_00407 0.28 -1.4 422,718 + CCNA_00407 0.40 +1.5 422,726 - CCNA_00407 0.41 -2.1 422,726 - CCNA_00407 0.41 -3.6 422,731 + CCNA_00407 0.42 -1.1 422,742 + CCNA_00407 0.45 -1.3 422,772 + CCNA_00407 0.51 -0.8 422,772 + CCNA_00407 0.51 -1.1 422,774 - CCNA_00407 0.51 +1.1 422,783 - CCNA_00407 0.53 +1.9 422,808 + CCNA_00407 0.58 +0.4 422,813 + CCNA_00407 0.59 -1.4 422,814 - CCNA_00407 0.60 +2.2 422,816 - CCNA_00407 0.60 -1.6 422,872 - CCNA_00407 0.72 +0.2 422,872 - CCNA_00407 0.72 -0.4 422,872 - +1.5 422,872 - CCNA_00407 0.72 -1.7 422,872 - CCNA_00407 0.72 -0.2 422,872 - CCNA_00407 0.72 -1.6 422,888 + CCNA_00407 0.75 +0.5 422,896 - CCNA_00407 0.77 +1.7 422,896 - CCNA_00407 0.77 +0.9 422,896 - CCNA_00407 0.77 +0.9 422,924 - CCNA_00407 0.82 +1.9 422,958 - CCNA_00407 0.90 +0.5 422,959 - CCNA_00407 0.90 -0.3 423,001 + -1.8 423,009 - +1.5 423,009 - +0.9 423,025 - -1.4 423,037 + +2.2 423,037 + -2.0 423,037 + +0.9 423,045 - +0.2 423,045 - +1.5 423,066 + +0.0 423,074 - -1.0 423,158 - +0.2 423,162 - -1.9 423,166 + -0.3 423,166 + -1.4 423,174 - CCNA_00408 0.11 -1.3 423,174 - CCNA_00408 0.11 -1.5 423,258 + CCNA_00408 0.17 +0.2 423,258 + CCNA_00408 0.17 +0.5 423,276 + CCNA_00408 0.19 +2.5 423,276 + CCNA_00408 0.19 +0.9 423,289 - CCNA_00408 0.20 -1.5 423,301 + CCNA_00408 0.21 +0.9 423,309 - CCNA_00408 0.21 +2.5 423,314 - CCNA_00408 0.22 +0.9 423,332 - CCNA_00408 0.23 -0.8 423,337 - CCNA_00408 0.23 -1.0 423,346 - CCNA_00408 0.24 +0.1 423,346 - CCNA_00408 0.24 +0.7 423,346 - CCNA_00408 0.24 -2.3 423,346 - CCNA_00408 0.24 -0.1 423,358 - CCNA_00408 0.25 -1.6 423,400 - CCNA_00408 0.28 -0.3 423,400 - CCNA_00408 0.28 -3.2 423,435 + CCNA_00408 0.31 +1.5 423,458 - CCNA_00408 0.33 +1.5 423,473 + CCNA_00408 0.34 -0.3 423,478 + CCNA_00408 0.35 +0.5 423,481 - CCNA_00408 0.35 -1.0 423,483 + CCNA_00408 0.35 -2.0 423,483 + CCNA_00408 0.35 -0.8 423,491 - CCNA_00408 0.36 -0.7 423,491 - CCNA_00408 0.36 -0.2 423,491 - CCNA_00408 0.36 -0.9 423,491 - CCNA_00408 0.36 -0.2 423,505 + CCNA_00408 0.37 -1.8 423,505 - CCNA_00408 0.37 +1.4 423,513 - CCNA_00408 0.37 -1.9 423,513 - CCNA_00408 0.37 -1.0 423,558 - CCNA_00408 0.41 -1.0 423,558 - CCNA_00408 0.41 -0.1 423,570 + CCNA_00408 0.42 +0.5 423,578 - CCNA_00408 0.42 -0.6 423,591 + CCNA_00408 0.43 -0.2 423,596 + CCNA_00408 0.44 -1.4 423,626 + CCNA_00408 0.46 -1.1 423,626 + CCNA_00408 0.46 -1.1 423,626 + +0.5 423,626 + CCNA_00408 0.46 +0.9 423,626 + CCNA_00408 0.46 -0.5 423,634 - CCNA_00408 0.47 -0.2 423,634 - CCNA_00408 0.47 -0.5 423,634 - CCNA_00408 0.47 -2.1 423,673 - CCNA_00408 0.50 -1.6 423,680 + CCNA_00408 0.50 +0.4 423,699 - CCNA_00408 0.52 -0.7 423,707 + CCNA_00408 0.53 +1.5 423,711 + CCNA_00408 0.53 -0.5 423,711 + CCNA_00408 0.53 -0.6 423,711 + CCNA_00408 0.53 +0.2 423,719 - CCNA_00408 0.54 +0.9 423,719 - CCNA_00408 0.54 -0.7 423,719 - CCNA_00408 0.54 -1.6 423,719 - CCNA_00408 0.54 -1.6 423,736 + CCNA_00408 0.55 -0.7 423,738 - CCNA_00408 0.55 +0.0 423,772 - CCNA_00408 0.58 -0.8 423,800 + CCNA_00408 0.60 -2.5 423,800 + CCNA_00408 0.60 -3.5 423,808 - CCNA_00408 0.61 -1.5 423,822 - CCNA_00408 0.62 -1.7 423,856 + CCNA_00408 0.64 +2.5 423,912 + CCNA_00408 0.69 -0.7 423,951 - CCNA_00408 0.72 +0.9 423,958 + CCNA_00408 0.72 -0.3 423,966 - CCNA_00408 0.73 +0.2 423,973 - CCNA_00408 0.74 -1.6 423,975 + CCNA_00408 0.74 -2.6 423,975 + CCNA_00408 0.74 -1.1 423,996 + CCNA_00408 0.75 -0.1 424,002 + CCNA_00408 0.76 -1.0 424,054 - CCNA_00408 0.80 -0.7 424,059 - CCNA_00408 0.80 +0.7 424,064 + CCNA_00408 0.81 -0.7 424,076 + CCNA_00408 0.82 +0.9 424,092 + CCNA_00408 0.83 +0.9 424,159 - CCNA_00408 0.88 -1.2 424,159 - CCNA_00408 0.88 +0.6 424,159 - CCNA_00408 0.88 -0.1 424,168 - CCNA_00408 0.89 -0.8 424,199 - -1.8 424,205 - -1.5 424,205 - +0.3 424,205 - -0.7 424,217 + -0.6 424,217 + -0.5 424,217 + -0.8 424,217 + +0.9 424,217 + +0.1 424,217 + -0.1 424,217 + -0.7 424,222 + -1.2 424,225 - -2.5 424,225 - -0.1 424,225 - -2.9 424,225 - -1.6 424,230 - -0.5 424,230 - -1.7 424,264 + +1.2 424,342 - -1.4 424,346 + -0.1 424,363 + +0.2 424,365 - +0.7 424,368 + +3.2 424,369 + +3.0 424,369 + +3.4 424,369 + +3.0 424,369 + +3.2 424,369 + +2.8 424,369 + +2.8 424,371 - -2.0 424,377 - -2.5 424,377 - +0.2 424,377 - +2.5 424,404 - +2.5 424,445 + CCNA_00409 0.87 -2.2 424,452 + +0.2 424,465 + +2.5 424,473 - -0.3 424,473 - -1.6 424,481 + +0.6 424,489 + +1.0 424,530 - -0.5 424,728 + CCNA_00410 0.40 +1.3 424,795 - CCNA_00410 0.53 +0.2 424,999 + +3.1 425,010 + -2.3 425,024 + -1.0 425,032 - +0.5 425,066 + -0.4 425,073 + +1.9 425,081 - -0.3 425,088 + +0.7 425,088 + +0.9 425,088 + -0.7 425,088 + +2.1 425,088 + +0.1 425,088 + +1.1 425,090 + +0.7 425,090 + +1.3 425,090 + -0.1 425,090 + +0.2 425,096 - -2.2 425,096 - +0.5 425,100 + +0.5 425,100 + -0.1 425,100 + +0.6 425,103 - +0.9 425,110 + +1.5 425,120 + +0.3 425,140 + CCNA_00411 0.11 +1.9 425,165 - CCNA_00411 0.16 -2.2 425,221 + CCNA_00411 0.26 +1.3 425,248 - CCNA_00411 0.30 -1.3 425,299 + CCNA_00411 0.40 +0.4 425,299 + CCNA_00411 0.40 +0.2 425,307 - CCNA_00411 0.41 +0.9
Or see this region's nucleotide sequence