Experiment: 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 Shewana3_0488 and Shewana3_0489 are separated by 515 nucleotides Shewana3_0489 and Shewana3_0490 are separated by 58 nucleotides Shewana3_0490 and Shewana3_0491 are separated by 93 nucleotides
Shewana3_0488: Shewana3_0488 - cytochrome c-type biogenesis protein CcmF (RefSeq), at 569,337 to 571,376
_0488
Shewana3_0489: Shewana3_0489 - cytochrome c, putative (RefSeq), at 571,892 to 574,021
_0489
Shewana3_0490: Shewana3_0490 - rhodanese domain-containing protein (RefSeq), at 574,080 to 574,523
_0490
Shewana3_0491: Shewana3_0491 - FKBP-type peptidyl-prolyl isomerase domain-containing protein (RefSeq), at 574,617 to 575,396
_0491
Position (kb) 571
572
573
574
575 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3 at 570.899 kb on - strand, within Shewana3_0488 at 570.970 kb on + strand, within Shewana3_0488 at 570.975 kb on + strand, within Shewana3_0488 at 571.002 kb on + strand, within Shewana3_0488 at 571.002 kb on + strand, within Shewana3_0488 at 571.005 kb on - strand, within Shewana3_0488 at 571.010 kb on - strand, within Shewana3_0488 at 571.010 kb on - strand, within Shewana3_0488 at 571.088 kb on + strand, within Shewana3_0488 at 571.094 kb on - strand, within Shewana3_0488 at 571.096 kb on - strand, within Shewana3_0488 at 571.098 kb on + strand, within Shewana3_0488 at 571.098 kb on + strand, within Shewana3_0488 at 571.098 kb on + strand, within Shewana3_0488 at 571.106 kb on - strand, within Shewana3_0488 at 571.106 kb on - strand, within Shewana3_0488 at 571.106 kb on - strand, within Shewana3_0488 at 571.141 kb on + strand, within Shewana3_0488 at 571.148 kb on - strand, within Shewana3_0488 at 571.149 kb on + strand, within Shewana3_0488 at 571.154 kb on + strand, within Shewana3_0488 at 571.162 kb on - strand, within Shewana3_0488 at 571.165 kb on + strand, within Shewana3_0488 at 571.165 kb on + strand, within Shewana3_0488 at 571.173 kb on - strand at 571.188 kb on + strand at 571.200 kb on + strand at 571.200 kb on + strand at 571.200 kb on + strand at 571.200 kb on + strand at 571.200 kb on + strand at 571.208 kb on - strand at 571.208 kb on - strand at 571.215 kb on + strand at 571.215 kb on + strand at 571.215 kb on + strand at 571.221 kb on + strand at 571.288 kb on - strand at 571.288 kb on - strand at 571.306 kb on + strand at 571.311 kb on + strand at 571.311 kb on + strand at 571.311 kb on + strand at 571.311 kb on + strand at 571.311 kb on + strand at 571.317 kb on + strand at 571.317 kb on + strand at 571.317 kb on + strand at 571.318 kb on + strand at 571.319 kb on - strand at 571.319 kb on - strand at 571.319 kb on - strand at 571.319 kb on - strand at 571.319 kb on - strand at 571.322 kb on + strand at 571.323 kb on - strand at 571.325 kb on - strand at 571.327 kb on + strand at 571.327 kb on + strand at 571.327 kb on + strand at 571.327 kb on + strand at 571.335 kb on - strand at 571.335 kb on - strand at 571.335 kb on - strand at 571.335 kb on - strand at 571.335 kb on - strand at 571.335 kb on - strand at 571.335 kb on - strand at 571.335 kb on - strand at 571.335 kb on - strand at 571.383 kb on + strand at 571.383 kb on + strand at 571.390 kb on + strand at 571.391 kb on - strand at 571.423 kb on - strand at 571.496 kb on + strand at 571.504 kb on - strand at 571.523 kb on + strand at 571.523 kb on + strand at 571.531 kb on - strand at 571.531 kb on - strand at 571.531 kb on - strand at 571.531 kb on - strand at 571.534 kb on + strand at 571.537 kb on + strand at 571.541 kb on + strand at 571.541 kb on + strand at 571.565 kb on + strand at 571.571 kb on - strand at 571.662 kb on + strand at 571.785 kb on + strand at 571.821 kb on + strand at 571.836 kb on + strand at 571.839 kb on - strand at 571.841 kb on + strand at 571.841 kb on + strand at 571.841 kb on + strand at 571.841 kb on + strand at 571.841 kb on + strand at 571.841 kb on + strand at 571.841 kb on + strand at 571.841 kb on + strand at 571.842 kb on + strand at 571.843 kb on + strand at 571.843 kb on + strand at 571.843 kb on + strand at 571.843 kb on + strand at 571.843 kb on + strand at 571.843 kb on + strand at 571.849 kb on - strand at 571.849 kb on - strand at 571.849 kb on - strand at 571.849 kb on - strand at 571.849 kb on - strand at 571.851 kb on - strand at 571.851 kb on - strand at 571.851 kb on - strand at 571.877 kb on + strand at 571.877 kb on + strand at 571.885 kb on - strand at 571.885 kb on - strand at 571.909 kb on - strand at 571.925 kb on - strand at 571.941 kb on + strand at 571.946 kb on + strand at 571.946 kb on + strand at 571.953 kb on + strand at 571.953 kb on + strand at 571.953 kb on + strand at 571.953 kb on + strand at 571.953 kb on + strand at 571.954 kb on + strand at 571.954 kb on + strand at 571.954 kb on - strand at 571.954 kb on - strand at 571.954 kb on - strand at 571.959 kb on + strand at 571.962 kb on - strand at 571.962 kb on - strand at 571.962 kb on - strand at 571.962 kb on - strand at 571.962 kb on - strand at 571.964 kb on - strand at 571.976 kb on - strand at 571.987 kb on + strand at 571.987 kb on + strand at 571.987 kb on + strand at 571.987 kb on + strand at 571.987 kb on + strand at 571.987 kb on + strand at 571.987 kb on + strand at 571.987 kb on + strand at 571.987 kb on + strand at 571.987 kb on + strand at 571.987 kb on + strand at 571.987 kb on + strand at 571.987 kb on + strand at 571.987 kb on + strand at 571.987 kb on + strand at 571.988 kb on + strand at 571.988 kb on + strand at 571.989 kb on + strand at 571.989 kb on + strand at 571.995 kb on - strand at 571.995 kb on - strand at 571.995 kb on - strand at 571.995 kb on - strand at 571.995 kb on - strand at 571.995 kb on - strand at 571.995 kb on - strand at 571.995 kb on - strand at 571.995 kb on - strand at 571.995 kb on - strand at 571.995 kb on - strand at 571.995 kb on - strand at 571.995 kb on - strand at 571.995 kb on - strand at 571.995 kb on - strand at 571.995 kb on - strand at 571.996 kb on - strand at 571.997 kb on - strand at 571.997 kb on - strand at 572.006 kb on - strand at 572.011 kb on - strand at 572.031 kb on - strand at 572.091 kb on + strand at 572.100 kb on - strand at 572.108 kb on - strand, within Shewana3_0489 at 572.125 kb on - strand, within Shewana3_0489 at 572.188 kb on + strand, within Shewana3_0489 at 572.191 kb on - strand, within Shewana3_0489 at 572.201 kb on + strand, within Shewana3_0489 at 572.207 kb on + strand, within Shewana3_0489 at 572.215 kb on - strand, within Shewana3_0489 at 572.225 kb on - strand, within Shewana3_0489 at 572.240 kb on + strand, within Shewana3_0489 at 572.240 kb on + strand, within Shewana3_0489 at 572.246 kb on - strand, within Shewana3_0489 at 572.246 kb on - strand, within Shewana3_0489 at 572.247 kb on + strand, within Shewana3_0489 at 572.248 kb on - strand, within Shewana3_0489 at 572.255 kb on - strand, within Shewana3_0489 at 572.257 kb on + strand, within Shewana3_0489 at 572.257 kb on + strand, within Shewana3_0489 at 572.266 kb on + strand, within Shewana3_0489 at 572.266 kb on + strand, within Shewana3_0489 at 572.266 kb on + strand, within Shewana3_0489 at 572.266 kb on + strand, within Shewana3_0489 at 572.266 kb on - strand, within Shewana3_0489 at 572.268 kb on + strand, within Shewana3_0489 at 572.292 kb on + strand, within Shewana3_0489 at 572.295 kb on - strand, within Shewana3_0489 at 572.297 kb on + strand, within Shewana3_0489 at 572.300 kb on - strand, within Shewana3_0489 at 572.300 kb on - strand, within Shewana3_0489 at 572.302 kb on + strand, within Shewana3_0489 at 572.310 kb on + strand, within Shewana3_0489 at 572.310 kb on - strand, within Shewana3_0489 at 572.330 kb on + strand, within Shewana3_0489 at 572.331 kb on + strand, within Shewana3_0489 at 572.331 kb on + strand, within Shewana3_0489 at 572.331 kb on + strand, within Shewana3_0489 at 572.455 kb on - strand, within Shewana3_0489 at 572.494 kb on + strand, within Shewana3_0489 at 572.494 kb on + strand, within Shewana3_0489 at 572.645 kb on - strand, within Shewana3_0489 at 572.808 kb on + strand, within Shewana3_0489 at 572.871 kb on - strand, within Shewana3_0489 at 572.901 kb on + strand, within Shewana3_0489 at 572.950 kb on - strand, within Shewana3_0489 at 572.950 kb on - strand, within Shewana3_0489 at 572.961 kb on - strand, within Shewana3_0489 at 572.961 kb on - strand, within Shewana3_0489 at 572.994 kb on + strand, within Shewana3_0489 at 573.061 kb on - strand, within Shewana3_0489 at 573.089 kb on - strand, within Shewana3_0489 at 573.118 kb on + strand, within Shewana3_0489 at 573.118 kb on + strand, within Shewana3_0489 at 573.126 kb on - strand, within Shewana3_0489 at 573.126 kb on - strand, within Shewana3_0489 at 573.224 kb on + strand, within Shewana3_0489 at 573.232 kb on - strand, within Shewana3_0489 at 573.330 kb on - strand, within Shewana3_0489 at 573.363 kb on - strand, within Shewana3_0489 at 573.513 kb on + strand, within Shewana3_0489 at 573.574 kb on - strand, within Shewana3_0489 at 573.595 kb on + strand, within Shewana3_0489 at 573.604 kb on + strand, within Shewana3_0489 at 573.671 kb on - strand, within Shewana3_0489 at 573.673 kb on + strand, within Shewana3_0489 at 573.681 kb on - strand, within Shewana3_0489 at 573.681 kb on - strand, within Shewana3_0489 at 573.734 kb on + strand, within Shewana3_0489 at 573.742 kb on - strand, within Shewana3_0489 at 573.824 kb on - strand at 573.953 kb on + strand at 573.953 kb on + strand at 573.953 kb on + strand at 573.953 kb on + strand at 573.961 kb on - strand at 573.961 kb on - strand at 573.961 kb on - strand at 574.031 kb on + strand at 574.039 kb on - strand at 574.066 kb on - strand at 574.176 kb on + strand, within Shewana3_0490 at 574.320 kb on + strand, within Shewana3_0490 at 574.455 kb on + strand, within Shewana3_0490 at 574.555 kb on - strand at 574.670 kb on - strand at 574.723 kb on - strand, within Shewana3_0491 at 574.795 kb on + strand, within Shewana3_0491 at 574.887 kb on + strand, within Shewana3_0491 at 574.895 kb on - strand, within Shewana3_0491 at 574.897 kb on + strand, within Shewana3_0491 at 574.897 kb on + strand, within Shewana3_0491 at 574.897 kb on + strand, within Shewana3_0491
Per-strain Table
Position Strand Gene LocusTag Fraction Chloramphenicol 0.0001 mg/ml remove 570,899 - Shewana3_0488 0.77 +0.6 570,970 + Shewana3_0488 0.80 -0.6 570,975 + Shewana3_0488 0.80 -0.4 571,002 + Shewana3_0488 0.82 -1.1 571,002 + Shewana3_0488 0.82 +0.3 571,005 - Shewana3_0488 0.82 +0.4 571,010 - Shewana3_0488 0.82 +0.0 571,010 - Shewana3_0488 0.82 +0.4 571,088 + Shewana3_0488 0.86 -0.5 571,094 - Shewana3_0488 0.86 +0.3 571,096 - Shewana3_0488 0.86 +0.3 571,098 + Shewana3_0488 0.86 -0.0 571,098 + Shewana3_0488 0.86 -1.0 571,098 + Shewana3_0488 0.86 +0.8 571,106 - Shewana3_0488 0.87 +0.4 571,106 - Shewana3_0488 0.87 +0.5 571,106 - Shewana3_0488 0.87 -0.1 571,141 + Shewana3_0488 0.88 -3.4 571,148 - Shewana3_0488 0.89 -0.7 571,149 + Shewana3_0488 0.89 -1.0 571,154 + Shewana3_0488 0.89 -0.2 571,162 - Shewana3_0488 0.89 +0.2 571,165 + Shewana3_0488 0.90 -1.2 571,165 + Shewana3_0488 0.90 -0.3 571,173 - +0.4 571,188 + +0.9 571,200 + -1.8 571,200 + -0.9 571,200 + +0.8 571,200 + -0.7 571,200 + +0.1 571,208 - -0.5 571,208 - +0.1 571,215 + -0.2 571,215 + +0.7 571,215 + -1.7 571,221 + -1.8 571,288 - -1.1 571,288 - -1.2 571,306 + +0.3 571,311 + -1.0 571,311 + -0.7 571,311 + -3.1 571,311 + +0.2 571,311 + -0.1 571,317 + -1.1 571,317 + -0.8 571,317 + -0.7 571,318 + -1.6 571,319 - -0.4 571,319 - -0.7 571,319 - +1.9 571,319 - -0.1 571,319 - -1.3 571,322 + -0.1 571,323 - -0.7 571,325 - -0.7 571,327 + -0.6 571,327 + +0.3 571,327 + -0.7 571,327 + +0.9 571,335 - -2.1 571,335 - +0.5 571,335 - -0.5 571,335 - -1.4 571,335 - -2.3 571,335 - -1.8 571,335 - -1.9 571,335 - -1.6 571,335 - -0.7 571,383 + +1.9 571,383 + -0.0 571,390 + -0.3 571,391 - +0.9 571,423 - -0.4 571,496 + +0.0 571,504 - +0.0 571,523 + -1.0 571,523 + -0.6 571,531 - -0.7 571,531 - -0.1 571,531 - -0.7 571,531 - +0.9 571,534 + -1.2 571,537 + -0.6 571,541 + +0.1 571,541 + -1.5 571,565 + -0.1 571,571 - -1.6 571,662 + +0.1 571,785 + +0.0 571,821 + -0.4 571,836 + -0.2 571,839 - -0.9 571,841 + +0.0 571,841 + -0.1 571,841 + +0.5 571,841 + +0.8 571,841 + -0.1 571,841 + -0.1 571,841 + +0.0 571,841 + -0.3 571,842 + +0.2 571,843 + -0.1 571,843 + +0.2 571,843 + +0.2 571,843 + +0.5 571,843 + +0.1 571,843 + -0.8 571,849 - -0.4 571,849 - -0.2 571,849 - +0.3 571,849 - +0.1 571,849 - +0.2 571,851 - -0.4 571,851 - -1.3 571,851 - -0.3 571,877 + -0.1 571,877 + +0.2 571,885 - -0.4 571,885 - +1.9 571,909 - -1.0 571,925 - -1.4 571,941 + -0.1 571,946 + -2.4 571,946 + -0.2 571,953 + -0.3 571,953 + -0.5 571,953 + -0.2 571,953 + -0.1 571,953 + +0.6 571,954 + +0.2 571,954 + +0.2 571,954 - -1.4 571,954 - +1.1 571,954 - +1.3 571,959 + +0.1 571,962 - -2.6 571,962 - +1.9 571,962 - -0.9 571,962 - -1.6 571,962 - -0.4 571,964 - +0.9 571,976 - +0.3 571,987 + +0.7 571,987 + +0.0 571,987 + -2.5 571,987 + -0.1 571,987 + -0.6 571,987 + -1.0 571,987 + -0.7 571,987 + -2.6 571,987 + -1.3 571,987 + +0.6 571,987 + -1.9 571,987 + -0.6 571,987 + -1.0 571,987 + -1.5 571,987 + +0.1 571,988 + -0.1 571,988 + -0.8 571,989 + +0.3 571,989 + -1.3 571,995 - -1.0 571,995 - -0.4 571,995 - -0.3 571,995 - -2.0 571,995 - -0.7 571,995 - +0.7 571,995 - -0.7 571,995 - +0.5 571,995 - -0.7 571,995 - -0.5 571,995 - -0.6 571,995 - -0.5 571,995 - +0.0 571,995 - +2.3 571,995 - -0.1 571,995 - -0.9 571,996 - -0.5 571,997 - -1.2 571,997 - -0.8 572,006 - -0.5 572,011 - -0.9 572,031 - +0.1 572,091 + -0.2 572,100 - -1.1 572,108 - Shewana3_0489 0.10 -1.8 572,125 - Shewana3_0489 0.11 -1.1 572,188 + Shewana3_0489 0.14 -1.0 572,191 - Shewana3_0489 0.14 -1.4 572,201 + Shewana3_0489 0.15 +0.3 572,207 + Shewana3_0489 0.15 +0.7 572,215 - Shewana3_0489 0.15 -1.8 572,225 - Shewana3_0489 0.16 -0.4 572,240 + Shewana3_0489 0.16 -0.7 572,240 + Shewana3_0489 0.16 -0.1 572,246 - Shewana3_0489 0.17 -3.4 572,246 - Shewana3_0489 0.17 -1.3 572,247 + Shewana3_0489 0.17 -1.1 572,248 - Shewana3_0489 0.17 -0.9 572,255 - Shewana3_0489 0.17 +0.9 572,257 + Shewana3_0489 0.17 +0.3 572,257 + Shewana3_0489 0.17 +0.3 572,266 + Shewana3_0489 0.18 +0.4 572,266 + Shewana3_0489 0.18 +0.2 572,266 + Shewana3_0489 0.18 -0.1 572,266 + Shewana3_0489 0.18 -0.6 572,266 - Shewana3_0489 0.18 -0.1 572,268 + Shewana3_0489 0.18 -0.1 572,292 + Shewana3_0489 0.19 -0.4 572,295 - Shewana3_0489 0.19 -1.3 572,297 + Shewana3_0489 0.19 +0.4 572,300 - Shewana3_0489 0.19 -1.1 572,300 - Shewana3_0489 0.19 -1.3 572,302 + Shewana3_0489 0.19 -0.8 572,310 + Shewana3_0489 0.20 +0.1 572,310 - Shewana3_0489 0.20 -0.7 572,330 + Shewana3_0489 0.21 -0.2 572,331 + Shewana3_0489 0.21 -0.7 572,331 + Shewana3_0489 0.21 -0.2 572,331 + Shewana3_0489 0.21 -1.8 572,455 - Shewana3_0489 0.26 -0.1 572,494 + Shewana3_0489 0.28 -0.2 572,494 + Shewana3_0489 0.28 +2.9 572,645 - Shewana3_0489 0.35 -0.5 572,808 + Shewana3_0489 0.43 +0.1 572,871 - Shewana3_0489 0.46 +0.4 572,901 + Shewana3_0489 0.47 -0.3 572,950 - Shewana3_0489 0.50 -0.5 572,950 - Shewana3_0489 0.50 +0.5 572,961 - Shewana3_0489 0.50 -0.1 572,961 - Shewana3_0489 0.50 -1.7 572,994 + Shewana3_0489 0.52 -0.4 573,061 - Shewana3_0489 0.55 +0.0 573,089 - Shewana3_0489 0.56 -0.4 573,118 + Shewana3_0489 0.58 +0.9 573,118 + Shewana3_0489 0.58 +0.4 573,126 - Shewana3_0489 0.58 -0.4 573,126 - Shewana3_0489 0.58 -1.2 573,224 + Shewana3_0489 0.63 -0.7 573,232 - Shewana3_0489 0.63 -0.1 573,330 - Shewana3_0489 0.68 -0.5 573,363 - Shewana3_0489 0.69 +0.8 573,513 + Shewana3_0489 0.76 +0.2 573,574 - Shewana3_0489 0.79 -1.0 573,595 + Shewana3_0489 0.80 -0.4 573,604 + Shewana3_0489 0.80 +0.2 573,671 - Shewana3_0489 0.84 -1.6 573,673 + Shewana3_0489 0.84 +0.4 573,681 - Shewana3_0489 0.84 -0.3 573,681 - Shewana3_0489 0.84 +0.6 573,734 + Shewana3_0489 0.86 +0.9 573,742 - Shewana3_0489 0.87 -0.1 573,824 - -0.3 573,953 + +0.5 573,953 + +0.6 573,953 + +0.9 573,953 + -0.2 573,961 - +0.1 573,961 - +0.1 573,961 - -0.5 574,031 + +0.2 574,039 - +0.8 574,066 - +0.3 574,176 + Shewana3_0490 0.22 +0.1 574,320 + Shewana3_0490 0.54 -0.4 574,455 + Shewana3_0490 0.84 +0.5 574,555 - +0.3 574,670 - +0.8 574,723 - Shewana3_0491 0.14 -0.8 574,795 + Shewana3_0491 0.23 +0.0 574,887 + Shewana3_0491 0.35 -0.2 574,895 - Shewana3_0491 0.36 -0.4 574,897 + Shewana3_0491 0.36 -0.9 574,897 + Shewana3_0491 0.36 +0.0 574,897 + Shewana3_0491 0.36 -0.3
Or see this region's nucleotide sequence