Experiment: Upstate
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_RS00760 and DDA3937_RS00765 are separated by 35 nucleotides DDA3937_RS00765 and DDA3937_RS00770 overlap by 31 nucleotides DDA3937_RS00770 and DDA3937_RS00775 are separated by 236 nucleotides
DDA3937_RS00760: DDA3937_RS00760 - hypothetical protein, at 178,343 to 178,933
_RS00760
DDA3937_RS00765: DDA3937_RS00765 - DUF3142 domain-containing protein, at 178,969 to 179,742
_RS00765
DDA3937_RS00770: DDA3937_RS00770 - hypothetical protein, at 179,712 to 181,913
_RS00770
DDA3937_RS00775: DDA3937_RS00775 - envelope stress sensor histidine kinase CpxA, at 182,150 to 183,523
_RS00775
Position (kb) 179
180
181
182 Strain fitness (log2 ratio) -2
-1
0
1
2
3
4 at 178.872 kb on + strand, within DDA3937_RS00760 at 178.872 kb on + strand, within DDA3937_RS00760 at 178.873 kb on - strand, within DDA3937_RS00760 at 178.873 kb on - strand, within DDA3937_RS00760 at 178.873 kb on - strand, within DDA3937_RS00760 at 178.873 kb on - strand, within DDA3937_RS00760 at 178.873 kb on - strand, within DDA3937_RS00760 at 178.906 kb on + strand at 178.907 kb on - strand at 178.970 kb on + strand at 179.085 kb on + strand, within DDA3937_RS00765 at 179.085 kb on + strand, within DDA3937_RS00765 at 179.085 kb on + strand, within DDA3937_RS00765 at 179.085 kb on + strand, within DDA3937_RS00765 at 179.085 kb on + strand, within DDA3937_RS00765 at 179.086 kb on - strand, within DDA3937_RS00765 at 179.086 kb on - strand, within DDA3937_RS00765 at 179.086 kb on - strand, within DDA3937_RS00765 at 179.086 kb on - strand, within DDA3937_RS00765 at 179.145 kb on - strand, within DDA3937_RS00765 at 179.166 kb on + strand, within DDA3937_RS00765 at 179.166 kb on + strand, within DDA3937_RS00765 at 179.167 kb on - strand, within DDA3937_RS00765 at 179.167 kb on - strand, within DDA3937_RS00765 at 179.180 kb on + strand, within DDA3937_RS00765 at 179.180 kb on + strand, within DDA3937_RS00765 at 179.180 kb on + strand, within DDA3937_RS00765 at 179.181 kb on - strand, within DDA3937_RS00765 at 179.207 kb on - strand, within DDA3937_RS00765 at 179.327 kb on + strand, within DDA3937_RS00765 at 179.327 kb on + strand, within DDA3937_RS00765 at 179.327 kb on + strand, within DDA3937_RS00765 at 179.327 kb on + strand, within DDA3937_RS00765 at 179.327 kb on + strand, within DDA3937_RS00765 at 179.327 kb on + strand, within DDA3937_RS00765 at 179.328 kb on - strand, within DDA3937_RS00765 at 179.343 kb on - strand, within DDA3937_RS00765 at 179.343 kb on - strand, within DDA3937_RS00765 at 179.410 kb on + strand, within DDA3937_RS00765 at 179.410 kb on + strand, within DDA3937_RS00765 at 179.410 kb on + strand, within DDA3937_RS00765 at 179.410 kb on + strand, within DDA3937_RS00765 at 179.410 kb on + strand, within DDA3937_RS00765 at 179.411 kb on - strand, within DDA3937_RS00765 at 179.411 kb on - strand, within DDA3937_RS00765 at 179.411 kb on - strand, within DDA3937_RS00765 at 179.428 kb on + strand, within DDA3937_RS00765 at 179.429 kb on - strand, within DDA3937_RS00765 at 179.567 kb on + strand, within DDA3937_RS00765 at 179.568 kb on - strand, within DDA3937_RS00765 at 179.568 kb on - strand, within DDA3937_RS00765 at 179.587 kb on + strand, within DDA3937_RS00765 at 179.587 kb on + strand at 179.588 kb on - strand, within DDA3937_RS00765 at 179.695 kb on + strand at 179.695 kb on + strand at 179.696 kb on - strand at 179.696 kb on - strand at 179.703 kb on + strand at 179.703 kb on + strand at 179.704 kb on - strand at 179.704 kb on - strand at 179.713 kb on + strand at 179.713 kb on + strand at 179.714 kb on - strand at 179.719 kb on + strand at 179.719 kb on + strand at 179.720 kb on - strand at 179.720 kb on - strand at 179.722 kb on + strand at 179.722 kb on + strand at 179.722 kb on + strand at 179.722 kb on + strand at 179.723 kb on - strand at 179.723 kb on - strand at 179.723 kb on - strand at 179.723 kb on - strand at 179.723 kb on - strand at 179.753 kb on + strand at 179.753 kb on + strand at 179.804 kb on + strand at 179.827 kb on + strand at 179.828 kb on - strand at 179.828 kb on - strand at 179.828 kb on - strand at 179.848 kb on + strand at 179.848 kb on + strand at 179.848 kb on + strand at 179.848 kb on + strand at 179.848 kb on + strand at 179.848 kb on + strand at 179.848 kb on + strand at 179.848 kb on + strand at 179.849 kb on - strand at 179.849 kb on - strand at 179.849 kb on - strand at 179.849 kb on - strand at 179.849 kb on - strand at 179.849 kb on - strand at 179.869 kb on + strand at 179.917 kb on + strand at 179.917 kb on + strand at 179.917 kb on + strand at 179.918 kb on - strand at 179.918 kb on - strand at 179.918 kb on - strand at 179.918 kb on - strand at 179.918 kb on - strand at 179.918 kb on - strand at 179.918 kb on - strand at 179.918 kb on - strand at 179.918 kb on - strand at 179.918 kb on - strand at 179.954 kb on - strand, within DDA3937_RS00770 at 179.954 kb on - strand, within DDA3937_RS00770 at 179.954 kb on - strand, within DDA3937_RS00770 at 179.984 kb on + strand, within DDA3937_RS00770 at 179.984 kb on + strand, within DDA3937_RS00770 at 179.984 kb on + strand, within DDA3937_RS00770 at 179.985 kb on - strand, within DDA3937_RS00770 at 179.985 kb on - strand, within DDA3937_RS00770 at 180.118 kb on + strand at 180.153 kb on + strand, within DDA3937_RS00770 at 180.154 kb on - strand, within DDA3937_RS00770 at 180.276 kb on + strand, within DDA3937_RS00770 at 180.484 kb on + strand, within DDA3937_RS00770 at 180.484 kb on + strand, within DDA3937_RS00770 at 180.484 kb on + strand at 180.484 kb on + strand, within DDA3937_RS00770 at 180.484 kb on + strand, within DDA3937_RS00770 at 180.484 kb on + strand, within DDA3937_RS00770 at 180.484 kb on + strand, within DDA3937_RS00770 at 180.485 kb on - strand, within DDA3937_RS00770 at 180.485 kb on - strand, within DDA3937_RS00770 at 180.485 kb on - strand, within DDA3937_RS00770 at 180.485 kb on - strand, within DDA3937_RS00770 at 180.570 kb on + strand, within DDA3937_RS00770 at 180.571 kb on - strand, within DDA3937_RS00770 at 180.647 kb on - strand, within DDA3937_RS00770 at 180.661 kb on + strand, within DDA3937_RS00770 at 180.662 kb on - strand, within DDA3937_RS00770 at 180.664 kb on + strand, within DDA3937_RS00770 at 180.665 kb on - strand, within DDA3937_RS00770 at 180.665 kb on - strand, within DDA3937_RS00770 at 180.665 kb on - strand, within DDA3937_RS00770 at 180.762 kb on + strand, within DDA3937_RS00770 at 180.762 kb on + strand, within DDA3937_RS00770 at 180.762 kb on + strand, within DDA3937_RS00770 at 180.762 kb on + strand, within DDA3937_RS00770 at 180.763 kb on - strand, within DDA3937_RS00770 at 180.807 kb on + strand, within DDA3937_RS00770 at 180.862 kb on - strand, within DDA3937_RS00770 at 180.862 kb on - strand, within DDA3937_RS00770 at 180.985 kb on + strand, within DDA3937_RS00770 at 181.009 kb on + strand, within DDA3937_RS00770 at 181.036 kb on + strand, within DDA3937_RS00770 at 181.105 kb on + strand, within DDA3937_RS00770 at 181.105 kb on + strand, within DDA3937_RS00770 at 181.105 kb on + strand, within DDA3937_RS00770 at 181.105 kb on + strand, within DDA3937_RS00770 at 181.106 kb on - strand, within DDA3937_RS00770 at 181.106 kb on - strand, within DDA3937_RS00770 at 181.106 kb on - strand, within DDA3937_RS00770 at 181.157 kb on + strand, within DDA3937_RS00770 at 181.157 kb on + strand, within DDA3937_RS00770 at 181.157 kb on + strand, within DDA3937_RS00770 at 181.157 kb on + strand, within DDA3937_RS00770 at 181.157 kb on + strand, within DDA3937_RS00770 at 181.157 kb on + strand, within DDA3937_RS00770 at 181.157 kb on + strand, within DDA3937_RS00770 at 181.157 kb on + strand, within DDA3937_RS00770 at 181.158 kb on - strand, within DDA3937_RS00770 at 181.158 kb on - strand, within DDA3937_RS00770 at 181.158 kb on - strand, within DDA3937_RS00770 at 181.158 kb on - strand, within DDA3937_RS00770 at 181.158 kb on - strand, within DDA3937_RS00770 at 181.158 kb on - strand, within DDA3937_RS00770 at 181.158 kb on - strand, within DDA3937_RS00770 at 181.158 kb on - strand, within DDA3937_RS00770 at 181.158 kb on - strand, within DDA3937_RS00770 at 181.159 kb on + strand, within DDA3937_RS00770 at 181.159 kb on + strand, within DDA3937_RS00770 at 181.159 kb on + strand, within DDA3937_RS00770 at 181.160 kb on - strand, within DDA3937_RS00770 at 181.160 kb on - strand, within DDA3937_RS00770 at 181.353 kb on + strand, within DDA3937_RS00770 at 181.354 kb on - strand, within DDA3937_RS00770 at 181.354 kb on - strand, within DDA3937_RS00770 at 181.354 kb on - strand, within DDA3937_RS00770 at 181.374 kb on + strand, within DDA3937_RS00770 at 181.375 kb on - strand, within DDA3937_RS00770 at 181.632 kb on - strand, within DDA3937_RS00770 at 181.632 kb on - strand, within DDA3937_RS00770 at 181.730 kb on + strand at 181.731 kb on - strand at 181.736 kb on + strand at 181.737 kb on - strand at 181.763 kb on + strand at 181.792 kb on + strand at 181.837 kb on - strand at 181.855 kb on + strand at 181.855 kb on + strand at 181.855 kb on + strand at 181.856 kb on - strand at 181.869 kb on + strand at 181.896 kb on + strand at 181.896 kb on + strand at 181.902 kb on + strand at 181.903 kb on - strand at 181.954 kb on + strand at 181.954 kb on + strand at 182.070 kb on - strand at 182.151 kb on + strand at 182.163 kb on + strand at 182.164 kb on - strand at 182.164 kb on - strand at 182.164 kb on - strand at 182.164 kb on - strand at 182.600 kb on + strand at 182.600 kb on + strand, within DDA3937_RS00775 at 182.774 kb on + strand, within DDA3937_RS00775 at 182.774 kb on + strand at 182.774 kb on + strand, within DDA3937_RS00775
Per-strain Table
Position Strand Gene LocusTag Fraction Upstate remove 178,872 + DDA3937_RS00760 0.90 -2.7 178,872 + DDA3937_RS00760 0.90 +1.2 178,873 - DDA3937_RS00760 0.90 +1.4 178,873 - DDA3937_RS00760 0.90 +0.3 178,873 - DDA3937_RS00760 0.90 -0.1 178,873 - DDA3937_RS00760 0.90 -1.2 178,873 - DDA3937_RS00760 0.90 -0.5 178,906 + +0.3 178,907 - +0.2 178,970 + -2.5 179,085 + DDA3937_RS00765 0.15 +1.7 179,085 + DDA3937_RS00765 0.15 +1.7 179,085 + DDA3937_RS00765 0.15 -0.2 179,085 + DDA3937_RS00765 0.15 -0.9 179,085 + DDA3937_RS00765 0.15 +0.4 179,086 - DDA3937_RS00765 0.15 +0.5 179,086 - DDA3937_RS00765 0.15 -1.8 179,086 - DDA3937_RS00765 0.15 -0.8 179,086 - DDA3937_RS00765 0.15 +0.2 179,145 - DDA3937_RS00765 0.23 +0.3 179,166 + DDA3937_RS00765 0.25 -0.0 179,166 + DDA3937_RS00765 0.25 -1.2 179,167 - DDA3937_RS00765 0.26 +1.8 179,167 - DDA3937_RS00765 0.26 -1.5 179,180 + DDA3937_RS00765 0.27 -1.9 179,180 + DDA3937_RS00765 0.27 -0.0 179,180 + DDA3937_RS00765 0.27 +1.0 179,181 - DDA3937_RS00765 0.27 -0.4 179,207 - DDA3937_RS00765 0.31 +0.3 179,327 + DDA3937_RS00765 0.46 -0.6 179,327 + DDA3937_RS00765 0.46 -0.7 179,327 + DDA3937_RS00765 0.46 +0.3 179,327 + DDA3937_RS00765 0.46 -0.0 179,327 + DDA3937_RS00765 0.46 +2.8 179,327 + DDA3937_RS00765 0.46 -0.7 179,328 - DDA3937_RS00765 0.46 +0.4 179,343 - DDA3937_RS00765 0.48 -1.0 179,343 - DDA3937_RS00765 0.48 -0.7 179,410 + DDA3937_RS00765 0.57 +0.4 179,410 + DDA3937_RS00765 0.57 +1.0 179,410 + DDA3937_RS00765 0.57 -0.5 179,410 + DDA3937_RS00765 0.57 -1.2 179,410 + DDA3937_RS00765 0.57 +1.3 179,411 - DDA3937_RS00765 0.57 -0.4 179,411 - DDA3937_RS00765 0.57 -0.9 179,411 - DDA3937_RS00765 0.57 -1.3 179,428 + DDA3937_RS00765 0.59 +0.4 179,429 - DDA3937_RS00765 0.59 -1.7 179,567 + DDA3937_RS00765 0.77 -0.3 179,568 - DDA3937_RS00765 0.77 -0.0 179,568 - DDA3937_RS00765 0.77 -0.2 179,587 + DDA3937_RS00765 0.80 -0.2 179,587 + +0.3 179,588 - DDA3937_RS00765 0.80 -0.9 179,695 + -0.2 179,695 + +1.3 179,696 - +1.9 179,696 - -1.0 179,703 + +3.2 179,703 + -1.3 179,704 - +1.3 179,704 - -0.7 179,713 + -1.0 179,713 + -0.5 179,714 - +0.9 179,719 + +0.5 179,719 + +0.2 179,720 - -0.0 179,720 - +0.7 179,722 + -0.7 179,722 + -0.5 179,722 + -0.5 179,722 + -0.3 179,723 - -1.2 179,723 - -1.1 179,723 - -0.8 179,723 - -0.3 179,723 - -0.0 179,753 + +0.1 179,753 + -1.8 179,804 + -0.6 179,827 + +0.1 179,828 - +0.9 179,828 - +0.1 179,828 - +0.1 179,848 + +0.4 179,848 + -0.5 179,848 + -0.4 179,848 + -1.0 179,848 + +0.2 179,848 + +1.0 179,848 + +0.9 179,848 + +0.2 179,849 - -1.8 179,849 - -0.1 179,849 - +1.6 179,849 - +1.5 179,849 - -0.2 179,849 - +0.3 179,869 + -0.3 179,917 + -0.1 179,917 + +0.1 179,917 + +0.3 179,918 - -0.6 179,918 - -0.5 179,918 - +0.1 179,918 - -0.3 179,918 - -1.3 179,918 - +1.4 179,918 - -0.0 179,918 - +1.1 179,918 - +0.9 179,918 - +0.2 179,954 - DDA3937_RS00770 0.11 +0.3 179,954 - DDA3937_RS00770 0.11 -0.9 179,954 - DDA3937_RS00770 0.11 -0.4 179,984 + DDA3937_RS00770 0.12 -0.0 179,984 + DDA3937_RS00770 0.12 +0.7 179,984 + DDA3937_RS00770 0.12 +0.6 179,985 - DDA3937_RS00770 0.12 -0.0 179,985 - DDA3937_RS00770 0.12 -0.0 180,118 + +0.7 180,153 + DDA3937_RS00770 0.20 -0.2 180,154 - DDA3937_RS00770 0.20 +0.8 180,276 + DDA3937_RS00770 0.26 -0.9 180,484 + DDA3937_RS00770 0.35 +3.8 180,484 + DDA3937_RS00770 0.35 +0.3 180,484 + +0.7 180,484 + DDA3937_RS00770 0.35 +1.0 180,484 + DDA3937_RS00770 0.35 +0.3 180,484 + DDA3937_RS00770 0.35 +2.9 180,484 + DDA3937_RS00770 0.35 -0.7 180,485 - DDA3937_RS00770 0.35 -1.0 180,485 - DDA3937_RS00770 0.35 +0.8 180,485 - DDA3937_RS00770 0.35 +0.2 180,485 - DDA3937_RS00770 0.35 -0.6 180,570 + DDA3937_RS00770 0.39 -1.7 180,571 - DDA3937_RS00770 0.39 -0.2 180,647 - DDA3937_RS00770 0.42 +0.5 180,661 + DDA3937_RS00770 0.43 +3.6 180,662 - DDA3937_RS00770 0.43 +1.5 180,664 + DDA3937_RS00770 0.43 -0.5 180,665 - DDA3937_RS00770 0.43 -0.9 180,665 - DDA3937_RS00770 0.43 +0.1 180,665 - DDA3937_RS00770 0.43 +1.5 180,762 + DDA3937_RS00770 0.48 -0.0 180,762 + DDA3937_RS00770 0.48 +1.1 180,762 + DDA3937_RS00770 0.48 -0.3 180,762 + DDA3937_RS00770 0.48 +1.0 180,763 - DDA3937_RS00770 0.48 -0.6 180,807 + DDA3937_RS00770 0.50 +0.1 180,862 - DDA3937_RS00770 0.52 +1.3 180,862 - DDA3937_RS00770 0.52 +0.1 180,985 + DDA3937_RS00770 0.58 +0.3 181,009 + DDA3937_RS00770 0.59 -0.6 181,036 + DDA3937_RS00770 0.60 -0.2 181,105 + DDA3937_RS00770 0.63 -2.2 181,105 + DDA3937_RS00770 0.63 +0.8 181,105 + DDA3937_RS00770 0.63 -1.2 181,105 + DDA3937_RS00770 0.63 +0.4 181,106 - DDA3937_RS00770 0.63 +0.2 181,106 - DDA3937_RS00770 0.63 +0.2 181,106 - DDA3937_RS00770 0.63 +1.8 181,157 + DDA3937_RS00770 0.66 +0.1 181,157 + DDA3937_RS00770 0.66 +0.5 181,157 + DDA3937_RS00770 0.66 -0.0 181,157 + DDA3937_RS00770 0.66 -1.8 181,157 + DDA3937_RS00770 0.66 +0.1 181,157 + DDA3937_RS00770 0.66 +2.0 181,157 + DDA3937_RS00770 0.66 -1.0 181,157 + DDA3937_RS00770 0.66 +0.9 181,158 - DDA3937_RS00770 0.66 -0.0 181,158 - DDA3937_RS00770 0.66 +1.6 181,158 - DDA3937_RS00770 0.66 -0.6 181,158 - DDA3937_RS00770 0.66 -0.0 181,158 - DDA3937_RS00770 0.66 +0.5 181,158 - DDA3937_RS00770 0.66 -0.7 181,158 - DDA3937_RS00770 0.66 -0.1 181,158 - DDA3937_RS00770 0.66 -0.7 181,158 - DDA3937_RS00770 0.66 -1.4 181,159 + DDA3937_RS00770 0.66 -0.7 181,159 + DDA3937_RS00770 0.66 -0.9 181,159 + DDA3937_RS00770 0.66 -0.9 181,160 - DDA3937_RS00770 0.66 -0.1 181,160 - DDA3937_RS00770 0.66 +0.3 181,353 + DDA3937_RS00770 0.75 -0.1 181,354 - DDA3937_RS00770 0.75 -1.1 181,354 - DDA3937_RS00770 0.75 -1.2 181,354 - DDA3937_RS00770 0.75 -0.3 181,374 + DDA3937_RS00770 0.75 -2.2 181,375 - DDA3937_RS00770 0.76 -1.0 181,632 - DDA3937_RS00770 0.87 -0.1 181,632 - DDA3937_RS00770 0.87 +0.5 181,730 + +1.3 181,731 - +0.1 181,736 + -0.5 181,737 - -1.4 181,763 + -0.6 181,792 + -0.8 181,837 - +0.3 181,855 + +1.3 181,855 + -0.7 181,855 + -0.1 181,856 - -0.0 181,869 + +0.9 181,896 + +0.3 181,896 + -0.9 181,902 + +1.1 181,903 - -0.8 181,954 + -2.6 181,954 + -0.1 182,070 - -0.0 182,151 + -1.9 182,163 + -0.6 182,164 - +1.5 182,164 - -0.0 182,164 - -0.2 182,164 - -0.0 182,600 + +1.3 182,600 + DDA3937_RS00775 0.33 +0.5 182,774 + DDA3937_RS00775 0.45 -1.7 182,774 + +0.3 182,774 + DDA3937_RS00775 0.45 +1.8
Or see this region's nucleotide sequence