Experiment: Red Arabinan from sugar-beet; filtered 2.5 mg/ml (C)
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 HMPREF1058_RS12120 and HMPREF1058_RS12115 are separated by 63 nucleotides HMPREF1058_RS12115 and HMPREF1058_RS12110 are separated by 4 nucleotides HMPREF1058_RS12110 and HMPREF1058_RS12105 are separated by 41 nucleotides HMPREF1058_RS12105 and HMPREF1058_RS12100 overlap by 4 nucleotides
HMPREF1058_RS12120: HMPREF1058_RS12120 - RNA polymerase sigma factor, at 196,507 to 197,016
_RS12120
HMPREF1058_RS12115: HMPREF1058_RS12115 - acetylglutamate kinase, at 197,080 to 197,853
_RS12115
HMPREF1058_RS12110: HMPREF1058_RS12110 - biosynthetic arginine decarboxylase, at 197,858 to 199,750
_RS12110
HMPREF1058_RS12105: HMPREF1058_RS12105 - shikimate kinase, at 199,792 to 200,319
_RS12105
HMPREF1058_RS12100: HMPREF1058_RS12100 - type I DNA topoisomerase, at 200,316 to 202,754
_RS12100
Position (kb) 197
198
199
200 Strain fitness (log2 ratio) -7
-6
-5
-4
-3
-2
-1
0
1 at 196.947 kb on + strand, within HMPREF1058_RS12120 at 196.964 kb on + strand, within HMPREF1058_RS12120 at 196.965 kb on - strand, within HMPREF1058_RS12120 at 197.024 kb on + strand at 197.135 kb on - strand at 197.135 kb on - strand at 197.245 kb on - strand, within HMPREF1058_RS12115 at 197.287 kb on + strand, within HMPREF1058_RS12115 at 197.288 kb on - strand, within HMPREF1058_RS12115 at 197.310 kb on - strand, within HMPREF1058_RS12115 at 197.368 kb on - strand, within HMPREF1058_RS12115 at 197.471 kb on - strand, within HMPREF1058_RS12115 at 197.625 kb on - strand, within HMPREF1058_RS12115 at 197.626 kb on + strand, within HMPREF1058_RS12115 at 197.626 kb on + strand, within HMPREF1058_RS12115 at 197.626 kb on + strand, within HMPREF1058_RS12115 at 197.627 kb on - strand, within HMPREF1058_RS12115 at 197.627 kb on - strand at 197.699 kb on - strand, within HMPREF1058_RS12115 at 197.751 kb on + strand, within HMPREF1058_RS12115 at 197.751 kb on + strand, within HMPREF1058_RS12115 at 197.761 kb on + strand, within HMPREF1058_RS12115 at 197.761 kb on + strand, within HMPREF1058_RS12115 at 197.761 kb on + strand, within HMPREF1058_RS12115 at 197.790 kb on + strand at 197.830 kb on + strand at 197.831 kb on - strand at 197.835 kb on + strand at 197.857 kb on - strand at 197.868 kb on + strand at 197.872 kb on + strand at 197.872 kb on + strand at 197.873 kb on - strand at 197.880 kb on + strand at 197.881 kb on - strand at 197.896 kb on - strand at 197.899 kb on + strand at 197.899 kb on + strand at 197.975 kb on - strand at 197.997 kb on + strand at 197.997 kb on + strand at 197.998 kb on - strand at 198.006 kb on + strand at 198.007 kb on - strand at 198.041 kb on + strand at 198.041 kb on + strand at 198.095 kb on - strand, within HMPREF1058_RS12110 at 198.152 kb on + strand, within HMPREF1058_RS12110 at 198.153 kb on - strand, within HMPREF1058_RS12110 at 198.153 kb on - strand, within HMPREF1058_RS12110 at 198.159 kb on - strand, within HMPREF1058_RS12110 at 198.161 kb on - strand, within HMPREF1058_RS12110 at 198.163 kb on - strand, within HMPREF1058_RS12110 at 198.209 kb on + strand, within HMPREF1058_RS12110 at 198.210 kb on - strand, within HMPREF1058_RS12110 at 198.210 kb on - strand, within HMPREF1058_RS12110 at 198.226 kb on + strand, within HMPREF1058_RS12110 at 198.274 kb on + strand, within HMPREF1058_RS12110 at 198.326 kb on + strand, within HMPREF1058_RS12110 at 198.480 kb on + strand, within HMPREF1058_RS12110 at 198.492 kb on - strand at 198.534 kb on - strand, within HMPREF1058_RS12110 at 198.757 kb on + strand, within HMPREF1058_RS12110 at 198.809 kb on - strand, within HMPREF1058_RS12110 at 198.822 kb on + strand, within HMPREF1058_RS12110 at 198.837 kb on + strand, within HMPREF1058_RS12110 at 198.838 kb on - strand, within HMPREF1058_RS12110 at 199.010 kb on + strand at 199.011 kb on - strand, within HMPREF1058_RS12110 at 199.012 kb on + strand, within HMPREF1058_RS12110 at 199.168 kb on + strand, within HMPREF1058_RS12110 at 199.173 kb on - strand, within HMPREF1058_RS12110 at 199.178 kb on - strand, within HMPREF1058_RS12110 at 199.178 kb on - strand, within HMPREF1058_RS12110 at 199.308 kb on + strand, within HMPREF1058_RS12110 at 199.487 kb on - strand, within HMPREF1058_RS12110 at 199.488 kb on + strand, within HMPREF1058_RS12110 at 199.513 kb on + strand, within HMPREF1058_RS12110 at 199.537 kb on + strand, within HMPREF1058_RS12110 at 199.573 kb on + strand at 199.574 kb on - strand at 199.574 kb on - strand at 199.659 kb on - strand at 199.713 kb on + strand at 199.713 kb on + strand at 199.775 kb on + strand at 199.776 kb on - strand at 199.785 kb on + strand at 199.785 kb on + strand at 199.786 kb on - strand at 199.787 kb on + strand at 199.789 kb on + strand at 199.790 kb on - strand at 199.793 kb on + strand at 199.797 kb on + strand at 199.846 kb on - strand, within HMPREF1058_RS12105 at 200.049 kb on + strand, within HMPREF1058_RS12105 at 200.050 kb on - strand, within HMPREF1058_RS12105 at 200.051 kb on + strand, within HMPREF1058_RS12105 at 200.051 kb on + strand, within HMPREF1058_RS12105 at 200.052 kb on - strand, within HMPREF1058_RS12105 at 200.196 kb on + strand, within HMPREF1058_RS12105 at 200.269 kb on + strand at 200.294 kb on + strand at 200.294 kb on + strand at 200.295 kb on - strand at 200.299 kb on + strand at 200.302 kb on + strand at 200.310 kb on + strand at 200.310 kb on + strand at 200.310 kb on + strand at 200.343 kb on + strand at 200.442 kb on - strand at 200.558 kb on - strand at 200.643 kb on - strand, within HMPREF1058_RS12100 at 200.735 kb on - strand, within HMPREF1058_RS12100
Per-strain Table
Position Strand Gene LocusTag Fraction Red Arabinan from sugar-beet; filtered 2.5 mg/ml (C) remove 196,947 + HMPREF1058_RS12120 0.86 +0.2 196,964 + HMPREF1058_RS12120 0.90 -0.2 196,965 - HMPREF1058_RS12120 0.90 +0.9 197,024 + -0.5 197,135 - -1.8 197,135 - -1.4 197,245 - HMPREF1058_RS12115 0.21 -3.4 197,287 + HMPREF1058_RS12115 0.27 -1.4 197,288 - HMPREF1058_RS12115 0.27 -0.4 197,310 - HMPREF1058_RS12115 0.30 -4.7 197,368 - HMPREF1058_RS12115 0.37 -4.7 197,471 - HMPREF1058_RS12115 0.51 -5.8 197,625 - HMPREF1058_RS12115 0.70 -5.1 197,626 + HMPREF1058_RS12115 0.71 -2.4 197,626 + HMPREF1058_RS12115 0.71 -4.7 197,626 + HMPREF1058_RS12115 0.71 -7.1 197,627 - HMPREF1058_RS12115 0.71 -6.8 197,627 - +0.9 197,699 - HMPREF1058_RS12115 0.80 -4.9 197,751 + HMPREF1058_RS12115 0.87 -3.6 197,751 + HMPREF1058_RS12115 0.87 -4.2 197,761 + HMPREF1058_RS12115 0.88 -4.2 197,761 + HMPREF1058_RS12115 0.88 -3.7 197,761 + HMPREF1058_RS12115 0.88 -4.0 197,790 + -1.7 197,830 + -5.7 197,831 - -6.0 197,835 + -5.6 197,857 - -0.1 197,868 + -4.1 197,872 + -3.6 197,872 + -5.0 197,873 - -1.7 197,880 + -6.1 197,881 - -2.7 197,896 - -2.7 197,899 + -5.0 197,899 + -3.8 197,975 - -1.1 197,997 + -5.0 197,997 + -4.0 197,998 - -3.5 198,006 + -4.7 198,007 - -3.2 198,041 + -4.4 198,041 + -0.1 198,095 - HMPREF1058_RS12110 0.13 -4.5 198,152 + HMPREF1058_RS12110 0.16 -5.7 198,153 - HMPREF1058_RS12110 0.16 -2.8 198,153 - HMPREF1058_RS12110 0.16 -2.8 198,159 - HMPREF1058_RS12110 0.16 -4.0 198,161 - HMPREF1058_RS12110 0.16 -3.4 198,163 - HMPREF1058_RS12110 0.16 -2.4 198,209 + HMPREF1058_RS12110 0.19 -3.5 198,210 - HMPREF1058_RS12110 0.19 -3.2 198,210 - HMPREF1058_RS12110 0.19 -1.7 198,226 + HMPREF1058_RS12110 0.19 -3.8 198,274 + HMPREF1058_RS12110 0.22 -2.1 198,326 + HMPREF1058_RS12110 0.25 -3.4 198,480 + HMPREF1058_RS12110 0.33 -3.6 198,492 - -0.4 198,534 - HMPREF1058_RS12110 0.36 -4.4 198,757 + HMPREF1058_RS12110 0.47 -1.9 198,809 - HMPREF1058_RS12110 0.50 -2.6 198,822 + HMPREF1058_RS12110 0.51 -4.3 198,837 + HMPREF1058_RS12110 0.52 -2.3 198,838 - HMPREF1058_RS12110 0.52 -2.2 199,010 + -1.1 199,011 - HMPREF1058_RS12110 0.61 -2.9 199,012 + HMPREF1058_RS12110 0.61 -5.7 199,168 + HMPREF1058_RS12110 0.69 -5.7 199,173 - HMPREF1058_RS12110 0.69 -3.2 199,178 - HMPREF1058_RS12110 0.70 -3.6 199,178 - HMPREF1058_RS12110 0.70 -3.8 199,308 + HMPREF1058_RS12110 0.77 -1.9 199,487 - HMPREF1058_RS12110 0.86 -3.0 199,488 + HMPREF1058_RS12110 0.86 -4.2 199,513 + HMPREF1058_RS12110 0.87 -4.5 199,537 + HMPREF1058_RS12110 0.89 -3.4 199,573 + -3.9 199,574 - -2.6 199,574 - -3.1 199,659 - -2.8 199,713 + -5.3 199,713 + -5.4 199,775 + -2.6 199,776 - -0.5 199,785 + -3.4 199,785 + -5.7 199,786 - +0.4 199,787 + -4.0 199,789 + -3.7 199,790 - +0.2 199,793 + -4.8 199,797 + -4.2 199,846 - HMPREF1058_RS12105 0.10 -4.1 200,049 + HMPREF1058_RS12105 0.49 -3.2 200,050 - HMPREF1058_RS12105 0.49 -5.7 200,051 + HMPREF1058_RS12105 0.49 -3.3 200,051 + HMPREF1058_RS12105 0.49 -4.7 200,052 - HMPREF1058_RS12105 0.49 -3.7 200,196 + HMPREF1058_RS12105 0.77 -3.0 200,269 + -5.2 200,294 + -5.4 200,294 + -3.6 200,295 - -4.9 200,299 + -5.5 200,302 + -2.6 200,310 + -6.0 200,310 + -4.3 200,310 + -5.7 200,343 + -1.4 200,442 - +0.3 200,558 - -1.4 200,643 - HMPREF1058_RS12100 0.13 +0.6 200,735 - HMPREF1058_RS12100 0.17 -0.7
Or see this region's nucleotide sequence