Experiment: Ying_Nucleobase14 rep A; time point 2
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 phoA and psiF are separated by 118 nucleotides psiF and yaiC are separated by 101 nucleotides yaiC and proC are separated by 16 nucleotides proC and yaiI are separated by 119 nucleotides
b0383: phoA - alkaline phosphatase (VIMSS), at 400,971 to 402,386
phoA
b0384: psiF - induced by phosphate starvation (VIMSS), at 402,505 to 402,825
psiF
b0385: yaiC - predicted diguanylate cyclase (NCBI), at 402,927 to 404,042
yaiC
b0386: proC - pyrroline-5-carboxylate reductase (NCBI), at 404,059 to 404,868
proC
b0387: yaiI - orf, hypothetical protein (VIMSS), at 404,988 to 405,446
yaiI
Position (kb) 402
403
404
405 Strain fitness (log2 ratio) -6
-5
-4
-3
-2
-1
0
1
2 at 401.930 kb on - strand, within phoA at 402.081 kb on + strand, within phoA at 402.081 kb on + strand, within phoA at 402.086 kb on - strand, within phoA at 402.144 kb on - strand, within phoA at 402.183 kb on + strand, within phoA at 402.218 kb on - strand, within phoA at 402.218 kb on - strand, within phoA at 402.246 kb on - strand at 402.291 kb on + strand at 402.291 kb on + strand at 402.350 kb on + strand at 402.605 kb on - strand, within psiF at 402.605 kb on - strand, within psiF at 402.689 kb on - strand, within psiF at 402.689 kb on - strand, within psiF at 402.733 kb on - strand, within psiF at 402.733 kb on - strand, within psiF at 402.826 kb on - strand at 402.827 kb on + strand at 402.835 kb on - strand at 402.840 kb on + strand at 402.873 kb on - strand at 402.873 kb on - strand at 403.026 kb on + strand at 403.050 kb on + strand, within yaiC at 403.050 kb on + strand, within yaiC at 403.058 kb on - strand, within yaiC at 403.063 kb on + strand, within yaiC at 403.130 kb on + strand, within yaiC at 403.291 kb on + strand, within yaiC at 403.558 kb on - strand, within yaiC at 403.558 kb on - strand, within yaiC at 403.574 kb on - strand, within yaiC at 403.574 kb on - strand, within yaiC at 403.600 kb on - strand, within yaiC at 403.600 kb on - strand, within yaiC at 403.892 kb on + strand, within yaiC at 403.892 kb on + strand, within yaiC at 403.970 kb on + strand at 403.999 kb on + strand at 404.002 kb on - strand at 404.123 kb on - strand at 404.154 kb on + strand, within proC at 404.177 kb on + strand, within proC at 404.177 kb on + strand, within proC at 404.182 kb on + strand, within proC at 404.182 kb on + strand, within proC at 404.188 kb on + strand, within proC at 404.270 kb on + strand, within proC at 404.343 kb on + strand, within proC at 404.427 kb on + strand, within proC at 404.514 kb on - strand, within proC at 404.539 kb on + strand, within proC at 404.566 kb on + strand, within proC at 404.572 kb on - strand, within proC at 404.588 kb on - strand, within proC at 404.588 kb on - strand, within proC at 404.588 kb on - strand, within proC at 404.717 kb on + strand, within proC at 404.717 kb on + strand, within proC at 404.778 kb on + strand, within proC
Per-strain Table
Position Strand Gene LocusTag Fraction Ying_Nucleobase14 rep A; time point 2 remove 401,930 - phoA b0383 0.68 -0.1 402,081 + phoA b0383 0.78 +0.3 402,081 + phoA b0383 0.78 +0.4 402,086 - phoA b0383 0.79 -0.4 402,144 - phoA b0383 0.83 -0.1 402,183 + phoA b0383 0.86 +0.2 402,218 - phoA b0383 0.88 +0.5 402,218 - phoA b0383 0.88 +0.5 402,246 - +0.6 402,291 + -0.7 402,291 + -0.3 402,350 + +0.0 402,605 - psiF b0384 0.31 -0.0 402,605 - psiF b0384 0.31 -0.9 402,689 - psiF b0384 0.57 +0.1 402,689 - psiF b0384 0.57 +0.4 402,733 - psiF b0384 0.71 -0.2 402,733 - psiF b0384 0.71 +0.2 402,826 - -0.2 402,827 + +0.6 402,835 - -0.2 402,840 + +0.4 402,873 - +0.5 402,873 - +0.5 403,026 + +0.3 403,050 + yaiC b0385 0.11 +0.0 403,050 + yaiC b0385 0.11 +0.3 403,058 - yaiC b0385 0.12 +0.3 403,063 + yaiC b0385 0.12 +0.4 403,130 + yaiC b0385 0.18 +0.6 403,291 + yaiC b0385 0.33 +0.5 403,558 - yaiC b0385 0.57 +0.3 403,558 - yaiC b0385 0.57 -0.1 403,574 - yaiC b0385 0.58 +0.2 403,574 - yaiC b0385 0.58 +0.9 403,600 - yaiC b0385 0.60 +1.8 403,600 - yaiC b0385 0.60 +0.7 403,892 + yaiC b0385 0.86 +1.8 403,892 + yaiC b0385 0.86 +0.9 403,970 + +0.2 403,999 + +0.1 404,002 - +0.4 404,123 - -2.5 404,154 + proC b0386 0.12 -4.4 404,177 + proC b0386 0.15 -3.4 404,177 + proC b0386 0.15 -4.8 404,182 + proC b0386 0.15 -3.5 404,182 + proC b0386 0.15 -5.0 404,188 + proC b0386 0.16 -3.6 404,270 + proC b0386 0.26 -3.8 404,343 + proC b0386 0.35 -3.5 404,427 + proC b0386 0.45 -3.4 404,514 - proC b0386 0.56 -3.6 404,539 + proC b0386 0.59 -3.7 404,566 + proC b0386 0.63 -4.8 404,572 - proC b0386 0.63 -5.8 404,588 - proC b0386 0.65 -3.7 404,588 - proC b0386 0.65 -4.0 404,588 - proC b0386 0.65 -3.5 404,717 + proC b0386 0.81 -2.5 404,717 + proC b0386 0.81 -2.9 404,778 + proC b0386 0.89 -2.3
Or see this region's nucleotide sequence