Experiment: P. putida South MOI 0.1
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 PP_1785 and PP_1786 are separated by 580 nucleotides PP_1786 and PP_1787 overlap by 4 nucleotides
PP_1785: PP_1785 - dTDP-glucose 4,6-dehydratase 2, at 1,998,379 to 1,999,479
_1785
PP_1786: PP_1786 - putative Glycosyl transferase, at 2,000,060 to 2,003,503
_1786
PP_1787: PP_1787 - conserved protein of unknown function, at 2,003,500 to 2,004,510
_1787
Position (kb)
2000
2001
2002
2003
2004 Strain fitness (log2 ratio)
-3
-2
-1
0
1
2
3 at 1999.472 kb on - strand at 1999.491 kb on - strand at 1999.578 kb on + strand at 1999.579 kb on - strand at 1999.579 kb on - strand at 1999.602 kb on - strand at 1999.694 kb on + strand at 1999.694 kb on + strand at 1999.785 kb on + strand at 1999.785 kb on + strand at 1999.795 kb on + strand at 1999.795 kb on + strand at 1999.796 kb on - strand at 1999.796 kb on - strand at 1999.800 kb on + strand at 1999.800 kb on + strand at 1999.819 kb on + strand at 1999.907 kb on - strand at 1999.977 kb on + strand at 1999.998 kb on + strand at 2000.047 kb on - strand at 2000.068 kb on + strand at 2000.068 kb on + strand at 2000.088 kb on + strand at 2000.088 kb on + strand at 2000.088 kb on + strand at 2000.113 kb on + strand at 2000.205 kb on + strand at 2000.205 kb on + strand at 2000.205 kb on + strand at 2000.206 kb on - strand at 2000.438 kb on - strand, within PP_1786 at 2000.488 kb on + strand, within PP_1786 at 2000.489 kb on - strand, within PP_1786 at 2000.526 kb on + strand, within PP_1786 at 2000.526 kb on + strand, within PP_1786 at 2000.617 kb on + strand, within PP_1786 at 2000.617 kb on + strand, within PP_1786 at 2000.619 kb on + strand, within PP_1786 at 2000.619 kb on + strand, within PP_1786 at 2000.638 kb on + strand, within PP_1786 at 2000.644 kb on + strand, within PP_1786 at 2000.680 kb on - strand at 2000.705 kb on + strand, within PP_1786 at 2000.705 kb on + strand, within PP_1786 at 2000.705 kb on + strand, within PP_1786 at 2000.706 kb on - strand, within PP_1786 at 2000.804 kb on + strand, within PP_1786 at 2000.804 kb on + strand, within PP_1786 at 2000.804 kb on + strand, within PP_1786 at 2000.804 kb on + strand, within PP_1786 at 2000.804 kb on + strand, within PP_1786 at 2000.804 kb on + strand, within PP_1786 at 2000.804 kb on + strand, within PP_1786 at 2000.805 kb on - strand, within PP_1786 at 2000.827 kb on + strand, within PP_1786 at 2000.841 kb on - strand, within PP_1786 at 2000.956 kb on + strand, within PP_1786 at 2000.956 kb on + strand, within PP_1786 at 2001.093 kb on - strand, within PP_1786 at 2001.093 kb on - strand, within PP_1786 at 2001.093 kb on - strand, within PP_1786 at 2001.114 kb on - strand, within PP_1786 at 2001.114 kb on - strand, within PP_1786 at 2001.134 kb on + strand, within PP_1786 at 2001.134 kb on + strand at 2001.135 kb on - strand, within PP_1786 at 2001.135 kb on - strand at 2001.214 kb on - strand, within PP_1786 at 2001.233 kb on - strand, within PP_1786 at 2001.234 kb on + strand, within PP_1786 at 2001.396 kb on + strand, within PP_1786 at 2001.397 kb on - strand, within PP_1786 at 2001.397 kb on - strand, within PP_1786 at 2001.493 kb on + strand, within PP_1786 at 2001.494 kb on - strand, within PP_1786 at 2001.497 kb on + strand, within PP_1786 at 2001.498 kb on - strand, within PP_1786 at 2001.498 kb on - strand, within PP_1786 at 2001.498 kb on - strand, within PP_1786 at 2001.595 kb on + strand at 2001.721 kb on + strand, within PP_1786 at 2001.728 kb on + strand, within PP_1786 at 2001.950 kb on - strand, within PP_1786 at 2002.200 kb on - strand, within PP_1786 at 2002.222 kb on + strand, within PP_1786 at 2002.377 kb on - strand, within PP_1786 at 2002.448 kb on + strand, within PP_1786 at 2002.448 kb on + strand, within PP_1786 at 2002.448 kb on + strand, within PP_1786 at 2002.455 kb on - strand, within PP_1786 at 2002.473 kb on - strand, within PP_1786 at 2002.516 kb on + strand, within PP_1786 at 2002.517 kb on - strand, within PP_1786 at 2002.533 kb on - strand, within PP_1786 at 2002.657 kb on + strand, within PP_1786 at 2002.705 kb on + strand, within PP_1786 at 2002.743 kb on - strand, within PP_1786 at 2002.753 kb on - strand, within PP_1786 at 2002.769 kb on - strand, within PP_1786 at 2002.946 kb on - strand, within PP_1786 at 2002.952 kb on + strand, within PP_1786 at 2002.968 kb on + strand, within PP_1786 at 2003.006 kb on + strand, within PP_1786 at 2003.010 kb on - strand, within PP_1786 at 2003.091 kb on - strand, within PP_1786 at 2003.169 kb on - strand at 2003.269 kb on + strand at 2003.305 kb on + strand at 2003.316 kb on - strand at 2003.343 kb on + strand at 2003.347 kb on - strand at 2003.356 kb on - strand at 2003.363 kb on - strand at 2003.453 kb on + strand at 2003.453 kb on + strand at 2003.672 kb on - strand, within PP_1787 at 2003.770 kb on + strand, within PP_1787 at 2003.892 kb on + strand, within PP_1787 at 2004.070 kb on - strand, within PP_1787 at 2004.113 kb on - strand, within PP_1787 at 2004.139 kb on + strand, within PP_1787 at 2004.255 kb on - strand, within PP_1787 at 2004.335 kb on + strand, within PP_1787
Per-strain Table
Position Strand Gene LocusTag Fraction P. putida South MOI 0.1 remove 1,999,472 - +1.8 1,999,491 - +0.7 1,999,578 + +1.5 1,999,579 - +2.4 1,999,579 - +1.7 1,999,602 - +0.2 1,999,694 + +0.2 1,999,694 + +0.2 1,999,785 + -0.3 1,999,785 + +0.6 1,999,795 + +0.1 1,999,795 + +0.4 1,999,796 - +1.5 1,999,796 - +1.7 1,999,800 + +0.9 1,999,800 + -1.0 1,999,819 + -3.0 1,999,907 - +1.8 1,999,977 + +1.3 1,999,998 + +0.4 2,000,047 - +1.7 2,000,068 + +1.2 2,000,068 + +1.7 2,000,088 + +0.9 2,000,088 + -1.2 2,000,088 + +0.8 2,000,113 + +0.1 2,000,205 + +2.4 2,000,205 + +1.8 2,000,205 + +1.5 2,000,206 - +1.1 2,000,438 - PP_1786 0.11 +0.8 2,000,488 + PP_1786 0.12 +1.3 2,000,489 - PP_1786 0.12 +1.6 2,000,526 + PP_1786 0.14 +1.9 2,000,526 + PP_1786 0.14 +2.1 2,000,617 + PP_1786 0.16 +1.3 2,000,617 + PP_1786 0.16 +1.4 2,000,619 + PP_1786 0.16 +1.8 2,000,619 + PP_1786 0.16 +0.9 2,000,638 + PP_1786 0.17 +2.4 2,000,644 + PP_1786 0.17 +1.8 2,000,680 - +3.4 2,000,705 + PP_1786 0.19 +1.6 2,000,705 + PP_1786 0.19 +2.8 2,000,705 + PP_1786 0.19 +1.4 2,000,706 - PP_1786 0.19 +0.3 2,000,804 + PP_1786 0.22 +0.7 2,000,804 + PP_1786 0.22 +1.7 2,000,804 + PP_1786 0.22 +2.3 2,000,804 + PP_1786 0.22 +1.6 2,000,804 + PP_1786 0.22 +1.9 2,000,804 + PP_1786 0.22 +1.4 2,000,804 + PP_1786 0.22 +2.6 2,000,805 - PP_1786 0.22 +1.5 2,000,827 + PP_1786 0.22 +1.8 2,000,841 - PP_1786 0.23 +1.7 2,000,956 + PP_1786 0.26 +2.3 2,000,956 + PP_1786 0.26 +1.1 2,001,093 - PP_1786 0.30 -0.0 2,001,093 - PP_1786 0.30 +0.8 2,001,093 - PP_1786 0.30 +1.3 2,001,114 - PP_1786 0.31 +0.9 2,001,114 - PP_1786 0.31 +1.9 2,001,134 + PP_1786 0.31 +1.4 2,001,134 + +3.0 2,001,135 - PP_1786 0.31 +1.7 2,001,135 - +1.4 2,001,214 - PP_1786 0.34 +1.5 2,001,233 - PP_1786 0.34 +1.2 2,001,234 + PP_1786 0.34 +2.3 2,001,396 + PP_1786 0.39 +1.6 2,001,397 - PP_1786 0.39 +1.6 2,001,397 - PP_1786 0.39 -0.5 2,001,493 + PP_1786 0.42 +0.9 2,001,494 - PP_1786 0.42 +1.0 2,001,497 + PP_1786 0.42 +1.4 2,001,498 - PP_1786 0.42 +1.8 2,001,498 - PP_1786 0.42 +1.1 2,001,498 - PP_1786 0.42 +2.4 2,001,595 + -0.9 2,001,721 + PP_1786 0.48 +2.3 2,001,728 + PP_1786 0.48 +1.0 2,001,950 - PP_1786 0.55 +2.1 2,002,200 - PP_1786 0.62 +2.2 2,002,222 + PP_1786 0.63 +1.9 2,002,377 - PP_1786 0.67 +2.3 2,002,448 + PP_1786 0.69 -0.4 2,002,448 + PP_1786 0.69 +2.1 2,002,448 + PP_1786 0.69 +2.2 2,002,455 - PP_1786 0.70 +2.1 2,002,473 - PP_1786 0.70 +2.9 2,002,516 + PP_1786 0.71 +1.6 2,002,517 - PP_1786 0.71 +0.6 2,002,533 - PP_1786 0.72 +2.6 2,002,657 + PP_1786 0.75 +2.1 2,002,705 + PP_1786 0.77 +1.4 2,002,743 - PP_1786 0.78 +3.0 2,002,753 - PP_1786 0.78 +0.6 2,002,769 - PP_1786 0.79 +2.2 2,002,946 - PP_1786 0.84 +2.3 2,002,952 + PP_1786 0.84 +2.5 2,002,968 + PP_1786 0.84 +1.5 2,003,006 + PP_1786 0.86 +1.7 2,003,010 - PP_1786 0.86 +1.1 2,003,091 - PP_1786 0.88 +0.8 2,003,169 - +2.4 2,003,269 + +2.3 2,003,305 + +2.3 2,003,316 - +0.6 2,003,343 + +2.0 2,003,347 - +1.5 2,003,356 - +2.0 2,003,363 - +1.7 2,003,453 + +2.2 2,003,453 + +1.6 2,003,672 - PP_1787 0.17 -0.3 2,003,770 + PP_1787 0.27 +0.5 2,003,892 + PP_1787 0.39 +0.6 2,004,070 - PP_1787 0.56 +1.0 2,004,113 - PP_1787 0.61 +0.1 2,004,139 + PP_1787 0.63 +0.7 2,004,255 - PP_1787 0.75 +1.6 2,004,335 + PP_1787 0.83 +1.0
Or see this region's nucleotide sequence