Experiment: PYE with Chloramphenicol 0.0001 mg/ml
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_00476 and CCNA_00477 are separated by 380 nucleotides CCNA_00477 and CCNA_00478 are separated by 121 nucleotides CCNA_00478 and CCNA_00479 are separated by 188 nucleotides CCNA_00479 and CCNA_00480 are separated by 68 nucleotides
CCNA_00476: CCNA_00476 - hypothetical protein, at 493,326 to 493,709
_00476
CCNA_00477: CCNA_00477 - excisionase, at 494,090 to 494,284
_00477
CCNA_00478: CCNA_00478 - hypothetical protein, at 494,406 to 495,143
_00478
CCNA_00479: CCNA_00479 - Helix-turn-helix DNA-binding protein, at 495,332 to 495,655
_00479
CCNA_00480: CCNA_00480 - bacteriophage P4 integrase, at 495,724 to 497,022
_00480
Position (kb) 494
495
496 Strain fitness (log2 ratio) -3
-2
-1
0
1
2 at 493.427 kb on - strand, within CCNA_00476 at 493.432 kb on - strand, within CCNA_00476 at 493.437 kb on - strand, within CCNA_00476 at 493.439 kb on + strand, within CCNA_00476 at 493.446 kb on + strand, within CCNA_00476 at 493.446 kb on + strand, within CCNA_00476 at 493.446 kb on + strand, within CCNA_00476 at 493.446 kb on + strand, within CCNA_00476 at 493.446 kb on + strand, within CCNA_00476 at 493.446 kb on + strand, within CCNA_00476 at 493.454 kb on - strand, within CCNA_00476 at 493.454 kb on - strand, within CCNA_00476 at 493.517 kb on - strand, within CCNA_00476 at 493.520 kb on + strand, within CCNA_00476 at 493.530 kb on + strand, within CCNA_00476 at 493.630 kb on - strand, within CCNA_00476 at 493.639 kb on + strand, within CCNA_00476 at 493.639 kb on + strand, within CCNA_00476 at 493.647 kb on - strand, within CCNA_00476 at 493.734 kb on - strand at 493.782 kb on + strand at 493.790 kb on + strand at 493.798 kb on - strand at 493.798 kb on - strand at 493.811 kb on + strand at 493.819 kb on - strand at 493.820 kb on + strand at 493.835 kb on + strand at 493.848 kb on + strand at 493.848 kb on + strand at 493.848 kb on + strand at 493.852 kb on + strand at 493.856 kb on - strand at 493.858 kb on + strand at 493.866 kb on - strand at 493.945 kb on - strand at 493.945 kb on - strand at 493.945 kb on - strand at 493.945 kb on - strand at 493.951 kb on + strand at 493.951 kb on + strand at 493.959 kb on - strand at 493.959 kb on - strand at 493.968 kb on - strand at 493.968 kb on - strand at 493.995 kb on + strand at 493.995 kb on + strand at 493.995 kb on + strand at 493.995 kb on + strand at 493.995 kb on + strand at 494.000 kb on + strand at 494.000 kb on + strand at 494.003 kb on - strand at 494.003 kb on - strand at 494.003 kb on - strand at 494.003 kb on - strand at 494.003 kb on - strand at 494.003 kb on - strand at 494.062 kb on - strand at 494.093 kb on + strand at 494.131 kb on - strand, within CCNA_00477 at 494.135 kb on + strand, within CCNA_00477 at 494.154 kb on + strand, within CCNA_00477 at 494.181 kb on + strand, within CCNA_00477 at 494.181 kb on + strand, within CCNA_00477 at 494.181 kb on + strand, within CCNA_00477 at 494.181 kb on + strand, within CCNA_00477 at 494.181 kb on + strand, within CCNA_00477 at 494.181 kb on + strand, within CCNA_00477 at 494.189 kb on - strand, within CCNA_00477 at 494.189 kb on - strand, within CCNA_00477 at 494.189 kb on - strand, within CCNA_00477 at 494.189 kb on - strand, within CCNA_00477 at 494.189 kb on - strand, within CCNA_00477 at 494.189 kb on - strand, within CCNA_00477 at 494.189 kb on - strand, within CCNA_00477 at 494.189 kb on - strand, within CCNA_00477 at 494.189 kb on - strand, within CCNA_00477 at 494.189 kb on - strand, within CCNA_00477 at 494.189 kb on - strand, within CCNA_00477 at 494.189 kb on - strand, within CCNA_00477 at 494.189 kb on - strand, within CCNA_00477 at 494.189 kb on - strand, within CCNA_00477 at 494.199 kb on - strand, within CCNA_00477 at 494.199 kb on - strand, within CCNA_00477 at 494.223 kb on + strand, within CCNA_00477 at 494.226 kb on + strand, within CCNA_00477 at 494.231 kb on - strand, within CCNA_00477 at 494.236 kb on + strand, within CCNA_00477 at 494.243 kb on + strand, within CCNA_00477 at 494.243 kb on + strand, within CCNA_00477 at 494.243 kb on + strand, within CCNA_00477 at 494.243 kb on + strand, within CCNA_00477 at 494.251 kb on - strand, within CCNA_00477 at 494.251 kb on - strand, within CCNA_00477 at 494.253 kb on + strand, within CCNA_00477 at 494.263 kb on + strand, within CCNA_00477 at 494.284 kb on + strand at 494.287 kb on + strand at 494.292 kb on + strand at 494.292 kb on + strand at 494.292 kb on + strand at 494.295 kb on - strand at 494.295 kb on - strand at 494.295 kb on - strand at 494.300 kb on - strand at 494.300 kb on - strand at 494.313 kb on + strand at 494.313 kb on + strand at 494.313 kb on + strand at 494.313 kb on + strand at 494.321 kb on - strand at 494.321 kb on - strand at 494.326 kb on - strand at 494.343 kb on - strand at 494.371 kb on + strand at 494.379 kb on - strand at 494.411 kb on - strand at 494.411 kb on - strand at 494.411 kb on - strand at 494.411 kb on - strand at 494.428 kb on + strand at 494.428 kb on + strand at 494.436 kb on - strand at 494.436 kb on - strand at 494.454 kb on + strand at 494.469 kb on - strand at 494.512 kb on - strand, within CCNA_00478 at 494.567 kb on - strand, within CCNA_00478 at 494.572 kb on + strand, within CCNA_00478 at 494.573 kb on + strand, within CCNA_00478 at 494.594 kb on + strand, within CCNA_00478 at 494.602 kb on - strand, within CCNA_00478 at 494.602 kb on - strand, within CCNA_00478 at 494.603 kb on - strand, within CCNA_00478 at 494.603 kb on - strand, within CCNA_00478 at 494.613 kb on - strand, within CCNA_00478 at 494.631 kb on + strand, within CCNA_00478 at 494.790 kb on - strand, within CCNA_00478 at 494.823 kb on - strand, within CCNA_00478 at 494.862 kb on + strand, within CCNA_00478 at 494.862 kb on + strand, within CCNA_00478 at 494.862 kb on + strand, within CCNA_00478 at 494.870 kb on - strand, within CCNA_00478 at 494.870 kb on - strand, within CCNA_00478 at 494.939 kb on + strand, within CCNA_00478 at 494.982 kb on + strand, within CCNA_00478 at 495.012 kb on + strand, within CCNA_00478 at 495.061 kb on + strand, within CCNA_00478 at 495.215 kb on + strand at 495.245 kb on + strand at 495.245 kb on + strand at 495.253 kb on - strand at 495.253 kb on - strand at 495.292 kb on + strand at 495.292 kb on + strand at 495.300 kb on - strand at 495.300 kb on - strand at 495.300 kb on - strand at 495.307 kb on + strand at 495.307 kb on + strand at 495.307 kb on + strand at 495.307 kb on + strand at 495.307 kb on + strand at 495.307 kb on + strand at 495.310 kb on - strand at 495.315 kb on - strand at 495.315 kb on - strand at 495.315 kb on - strand at 495.315 kb on - strand at 495.324 kb on - strand at 495.405 kb on + strand, within CCNA_00479 at 495.420 kb on + strand, within CCNA_00479 at 495.428 kb on - strand, within CCNA_00479 at 495.428 kb on - strand, within CCNA_00479 at 495.428 kb on - strand, within CCNA_00479 at 495.430 kb on + strand, within CCNA_00479 at 495.447 kb on + strand, within CCNA_00479 at 495.448 kb on + strand, within CCNA_00479 at 495.453 kb on + strand, within CCNA_00479 at 495.456 kb on - strand, within CCNA_00479 at 495.456 kb on - strand, within CCNA_00479 at 495.503 kb on + strand, within CCNA_00479 at 495.503 kb on + strand, within CCNA_00479 at 495.503 kb on + strand, within CCNA_00479 at 495.503 kb on + strand, within CCNA_00479 at 495.503 kb on + strand, within CCNA_00479 at 495.503 kb on + strand, within CCNA_00479 at 495.503 kb on + strand, within CCNA_00479 at 495.503 kb on + strand, within CCNA_00479 at 495.503 kb on + strand, within CCNA_00479 at 495.503 kb on + strand, within CCNA_00479 at 495.511 kb on - strand, within CCNA_00479 at 495.511 kb on - strand, within CCNA_00479 at 495.511 kb on - strand, within CCNA_00479 at 495.511 kb on - strand, within CCNA_00479 at 495.511 kb on - strand, within CCNA_00479 at 495.511 kb on - strand, within CCNA_00479 at 495.511 kb on - strand, within CCNA_00479 at 495.518 kb on - strand, within CCNA_00479 at 495.518 kb on - strand, within CCNA_00479 at 495.526 kb on + strand, within CCNA_00479 at 495.526 kb on + strand, within CCNA_00479 at 495.542 kb on - strand, within CCNA_00479 at 495.561 kb on + strand, within CCNA_00479 at 495.561 kb on + strand, within CCNA_00479 at 495.569 kb on - strand, within CCNA_00479 at 495.569 kb on - strand, within CCNA_00479 at 495.569 kb on - strand, within CCNA_00479 at 495.569 kb on - strand, within CCNA_00479 at 495.593 kb on + strand, within CCNA_00479 at 495.594 kb on + strand, within CCNA_00479 at 495.594 kb on + strand, within CCNA_00479 at 495.594 kb on + strand, within CCNA_00479 at 495.622 kb on - strand, within CCNA_00479 at 495.654 kb on + strand at 495.663 kb on + strand at 495.699 kb on - strand at 495.721 kb on + strand at 495.721 kb on + strand at 495.729 kb on - strand at 495.729 kb on - strand at 495.738 kb on - strand at 495.749 kb on + strand at 495.757 kb on - strand at 495.761 kb on + strand at 495.769 kb on - strand at 495.854 kb on + strand, within CCNA_00480 at 495.908 kb on + strand, within CCNA_00480 at 495.927 kb on - strand, within CCNA_00480 at 495.933 kb on + strand, within CCNA_00480 at 495.943 kb on + strand, within CCNA_00480 at 495.951 kb on - strand, within CCNA_00480 at 495.951 kb on - strand, within CCNA_00480 at 495.959 kb on + strand, within CCNA_00480 at 495.959 kb on + strand, within CCNA_00480 at 495.959 kb on + strand, within CCNA_00480 at 495.959 kb on + strand, within CCNA_00480 at 495.967 kb on - strand, within CCNA_00480 at 495.967 kb on - strand, within CCNA_00480 at 495.967 kb on - strand, within CCNA_00480 at 496.012 kb on + strand, within CCNA_00480 at 496.020 kb on - strand, within CCNA_00480 at 496.020 kb on - strand, within CCNA_00480 at 496.122 kb on - strand, within CCNA_00480 at 496.132 kb on - strand, within CCNA_00480
Per-strain Table
Position Strand Gene LocusTag Fraction PYE with Chloramphenicol 0.0001 mg/ml remove 493,427 - CCNA_00476 0.26 -1.5 493,432 - CCNA_00476 0.28 +1.0 493,437 - CCNA_00476 0.29 -0.1 493,439 + CCNA_00476 0.29 -0.6 493,446 + CCNA_00476 0.31 +0.5 493,446 + CCNA_00476 0.31 +0.6 493,446 + CCNA_00476 0.31 +1.1 493,446 + CCNA_00476 0.31 +0.4 493,446 + CCNA_00476 0.31 +2.1 493,446 + CCNA_00476 0.31 -0.2 493,454 - CCNA_00476 0.33 +0.2 493,454 - CCNA_00476 0.33 +0.5 493,517 - CCNA_00476 0.50 +0.4 493,520 + CCNA_00476 0.51 -1.5 493,530 + CCNA_00476 0.53 -0.8 493,630 - CCNA_00476 0.79 -0.4 493,639 + CCNA_00476 0.82 -0.1 493,639 + CCNA_00476 0.82 +0.3 493,647 - CCNA_00476 0.84 +1.4 493,734 - -1.0 493,782 + +0.3 493,790 + -0.9 493,798 - -0.8 493,798 - +0.5 493,811 + +0.1 493,819 - -1.6 493,820 + -0.5 493,835 + +0.3 493,848 + -0.5 493,848 + -1.0 493,848 + -0.1 493,852 + -0.9 493,856 - -1.2 493,858 + +0.4 493,866 - -0.5 493,945 - +1.4 493,945 - +1.6 493,945 - +1.9 493,945 - +1.9 493,951 + -1.3 493,951 + +2.5 493,959 - -2.0 493,959 - +1.2 493,968 - +0.2 493,968 - -0.2 493,995 + +0.8 493,995 + -0.2 493,995 + +0.5 493,995 + -0.0 493,995 + +0.3 494,000 + +0.4 494,000 + +0.4 494,003 - -2.0 494,003 - +0.8 494,003 - -0.4 494,003 - -0.5 494,003 - -2.0 494,003 - -0.6 494,062 - -0.1 494,093 + -0.0 494,131 - CCNA_00477 0.21 -0.6 494,135 + CCNA_00477 0.23 +0.1 494,154 + CCNA_00477 0.33 -2.2 494,181 + CCNA_00477 0.47 -1.1 494,181 + CCNA_00477 0.47 -1.3 494,181 + CCNA_00477 0.47 -1.7 494,181 + CCNA_00477 0.47 -1.7 494,181 + CCNA_00477 0.47 -2.0 494,181 + CCNA_00477 0.47 -1.9 494,189 - CCNA_00477 0.51 -1.1 494,189 - CCNA_00477 0.51 +0.3 494,189 - CCNA_00477 0.51 -0.2 494,189 - CCNA_00477 0.51 +0.3 494,189 - CCNA_00477 0.51 -0.9 494,189 - CCNA_00477 0.51 +0.4 494,189 - CCNA_00477 0.51 +0.0 494,189 - CCNA_00477 0.51 +0.2 494,189 - CCNA_00477 0.51 -0.2 494,189 - CCNA_00477 0.51 +0.3 494,189 - CCNA_00477 0.51 +0.1 494,189 - CCNA_00477 0.51 +0.5 494,189 - CCNA_00477 0.51 -0.2 494,189 - CCNA_00477 0.51 +0.8 494,199 - CCNA_00477 0.56 +1.0 494,199 - CCNA_00477 0.56 -0.0 494,223 + CCNA_00477 0.68 -1.0 494,226 + CCNA_00477 0.70 +0.0 494,231 - CCNA_00477 0.72 -2.1 494,236 + CCNA_00477 0.75 +0.4 494,243 + CCNA_00477 0.78 -2.2 494,243 + CCNA_00477 0.78 -0.4 494,243 + CCNA_00477 0.78 -0.8 494,243 + CCNA_00477 0.78 -1.2 494,251 - CCNA_00477 0.83 -1.9 494,251 - CCNA_00477 0.83 +1.9 494,253 + CCNA_00477 0.84 -0.0 494,263 + CCNA_00477 0.89 -0.1 494,284 + +0.3 494,287 + -0.8 494,292 + -1.2 494,292 + +0.4 494,292 + -0.1 494,295 - -0.5 494,295 - -0.2 494,295 - -0.5 494,300 - +0.9 494,300 - +0.2 494,313 + +0.6 494,313 + -1.9 494,313 + -2.3 494,313 + +1.4 494,321 - +0.9 494,321 - -0.1 494,326 - +1.8 494,343 - -0.4 494,371 + -1.1 494,379 - -0.6 494,411 - -0.2 494,411 - -0.9 494,411 - -2.4 494,411 - -1.9 494,428 + +2.5 494,428 + -1.3 494,436 - -0.6 494,436 - -0.3 494,454 + +0.1 494,469 - -1.4 494,512 - CCNA_00478 0.14 -0.5 494,567 - CCNA_00478 0.22 +0.1 494,572 + CCNA_00478 0.22 -0.2 494,573 + CCNA_00478 0.23 -0.2 494,594 + CCNA_00478 0.25 +0.1 494,602 - CCNA_00478 0.27 +0.5 494,602 - CCNA_00478 0.27 -1.5 494,603 - CCNA_00478 0.27 -2.1 494,603 - CCNA_00478 0.27 +0.5 494,613 - CCNA_00478 0.28 -0.4 494,631 + CCNA_00478 0.30 -2.8 494,790 - CCNA_00478 0.52 -1.2 494,823 - CCNA_00478 0.57 -1.7 494,862 + CCNA_00478 0.62 +1.4 494,862 + CCNA_00478 0.62 -0.4 494,862 + CCNA_00478 0.62 -0.4 494,870 - CCNA_00478 0.63 -0.5 494,870 - CCNA_00478 0.63 -0.9 494,939 + CCNA_00478 0.72 -1.3 494,982 + CCNA_00478 0.78 -2.4 495,012 + CCNA_00478 0.82 -0.5 495,061 + CCNA_00478 0.89 -2.5 495,215 + -1.7 495,245 + -2.0 495,245 + -1.4 495,253 - -0.4 495,253 - +0.1 495,292 + -2.2 495,292 + -0.6 495,300 - +1.4 495,300 - -0.6 495,300 - +0.0 495,307 + -1.2 495,307 + -1.3 495,307 + -2.0 495,307 + -0.1 495,307 + +0.9 495,307 + -0.9 495,310 - -2.5 495,315 - +1.2 495,315 - +1.4 495,315 - -1.8 495,315 - -0.8 495,324 - -0.4 495,405 + CCNA_00479 0.23 -0.5 495,420 + CCNA_00479 0.27 -0.5 495,428 - CCNA_00479 0.30 -0.1 495,428 - CCNA_00479 0.30 +0.0 495,428 - CCNA_00479 0.30 +0.8 495,430 + CCNA_00479 0.30 -1.9 495,447 + CCNA_00479 0.35 -0.6 495,448 + CCNA_00479 0.36 -1.2 495,453 + CCNA_00479 0.37 -1.9 495,456 - CCNA_00479 0.38 -0.8 495,456 - CCNA_00479 0.38 -1.5 495,503 + CCNA_00479 0.53 +1.5 495,503 + CCNA_00479 0.53 +1.5 495,503 + CCNA_00479 0.53 -0.1 495,503 + CCNA_00479 0.53 +0.3 495,503 + CCNA_00479 0.53 -0.3 495,503 + CCNA_00479 0.53 -0.8 495,503 + CCNA_00479 0.53 +0.4 495,503 + CCNA_00479 0.53 -0.5 495,503 + CCNA_00479 0.53 -1.4 495,503 + CCNA_00479 0.53 -0.4 495,511 - CCNA_00479 0.55 -0.5 495,511 - CCNA_00479 0.55 -2.6 495,511 - CCNA_00479 0.55 -1.4 495,511 - CCNA_00479 0.55 +0.7 495,511 - CCNA_00479 0.55 -1.2 495,511 - CCNA_00479 0.55 -0.7 495,511 - CCNA_00479 0.55 -0.5 495,518 - CCNA_00479 0.57 +1.1 495,518 - CCNA_00479 0.57 -0.4 495,526 + CCNA_00479 0.60 -1.1 495,526 + CCNA_00479 0.60 -0.6 495,542 - CCNA_00479 0.65 -1.6 495,561 + CCNA_00479 0.71 -0.9 495,561 + CCNA_00479 0.71 -0.2 495,569 - CCNA_00479 0.73 -2.5 495,569 - CCNA_00479 0.73 +0.4 495,569 - CCNA_00479 0.73 +0.3 495,569 - CCNA_00479 0.73 -0.8 495,593 + CCNA_00479 0.81 +0.8 495,594 + CCNA_00479 0.81 -0.9 495,594 + CCNA_00479 0.81 -0.4 495,594 + CCNA_00479 0.81 +0.5 495,622 - CCNA_00479 0.90 -0.4 495,654 + -0.6 495,663 + +0.4 495,699 - -2.2 495,721 + +0.8 495,721 + -1.2 495,729 - -0.6 495,729 - -0.7 495,738 - -0.4 495,749 + -1.5 495,757 - -1.2 495,761 + -1.6 495,769 - -3.4 495,854 + CCNA_00480 0.10 -0.7 495,908 + CCNA_00480 0.14 +1.7 495,927 - CCNA_00480 0.16 -1.7 495,933 + CCNA_00480 0.16 -0.7 495,943 + CCNA_00480 0.17 +1.7 495,951 - CCNA_00480 0.17 -1.6 495,951 - CCNA_00480 0.17 +0.2 495,959 + CCNA_00480 0.18 +0.1 495,959 + CCNA_00480 0.18 +0.3 495,959 + CCNA_00480 0.18 +0.6 495,959 + CCNA_00480 0.18 -2.2 495,967 - CCNA_00480 0.19 -0.7 495,967 - CCNA_00480 0.19 -1.2 495,967 - CCNA_00480 0.19 -1.2 496,012 + CCNA_00480 0.22 -1.0 496,020 - CCNA_00480 0.23 +0.3 496,020 - CCNA_00480 0.23 -0.5 496,122 - CCNA_00480 0.31 +1.3 496,132 - CCNA_00480 0.31 -0.6
Or see this region's nucleotide sequence