Strain Fitness in Herbaspirillum seropedicae SmR1 around HSERO_RS00905

Experiment: L-Malic (C)

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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.

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500 ntHSERO_RS00900 and HSERO_RS00905 are separated by 257 nucleotidesHSERO_RS00905 and HSERO_RS00910 are separated by 198 nucleotidesHSERO_RS00910 and HSERO_RS00915 are separated by 64 nucleotides HSERO_RS00900: HSERO_RS00900 - L-proline ABC transporter, ATPase component 2 (from data), at 187,220 to 187,945 _RS00900 HSERO_RS00905: HSERO_RS00905 - L-glutamate gamma-semialdehyde dehydrogenase (EC 1.2.1.88); Proline dehydrogenase (EC 1.5.5.2) (from data), at 188,203 to 191,895 _RS00905 HSERO_RS00910: HSERO_RS00910 - peptidase, at 192,094 to 192,630 _RS00910 HSERO_RS00915: HSERO_RS00915 - ATP-dependent protease, at 192,695 to 194,041 _RS00915 Position (kb) 188 189 190 191 192Strain fitness (log2 ratio) -2 -1 0 1 2at 187.682 kb on + strand, within HSERO_RS00900at 188.009 kb on + strandat 188.045 kb on - strandat 188.056 kb on + strandat 188.193 kb on + strandat 188.334 kb on - strandat 188.740 kb on + strand, within HSERO_RS00905at 188.741 kb on + strand, within HSERO_RS00905at 188.748 kb on - strand, within HSERO_RS00905at 188.759 kb on - strand, within HSERO_RS00905at 189.056 kb on + strand, within HSERO_RS00905at 189.208 kb on + strand, within HSERO_RS00905at 189.339 kb on + strand, within HSERO_RS00905at 189.347 kb on - strand, within HSERO_RS00905at 189.348 kb on + strand, within HSERO_RS00905at 189.628 kb on - strand, within HSERO_RS00905at 189.633 kb on - strandat 189.749 kb on + strand, within HSERO_RS00905at 189.843 kb on + strand, within HSERO_RS00905at 189.843 kb on + strand, within HSERO_RS00905at 189.885 kb on - strand, within HSERO_RS00905at 189.994 kb on + strand, within HSERO_RS00905at 190.002 kb on - strand, within HSERO_RS00905at 190.275 kb on - strand, within HSERO_RS00905at 190.275 kb on - strand, within HSERO_RS00905at 190.499 kb on + strand, within HSERO_RS00905at 190.505 kb on - strand, within HSERO_RS00905at 190.576 kb on - strand, within HSERO_RS00905at 190.724 kb on + strand, within HSERO_RS00905at 191.116 kb on - strand, within HSERO_RS00905at 191.363 kb on - strand, within HSERO_RS00905at 191.365 kb on + strand, within HSERO_RS00905at 191.410 kb on - strand, within HSERO_RS00905at 191.618 kb on - strandat 191.844 kb on - strandat 191.862 kb on + strandat 192.153 kb on + strand, within HSERO_RS00910at 192.293 kb on + strand, within HSERO_RS00910at 192.381 kb on + strand, within HSERO_RS00910at 192.404 kb on - strand, within HSERO_RS00910at 192.537 kb on + strand, within HSERO_RS00910at 192.588 kb on + strandat 192.624 kb on + strandat 192.882 kb on - strand, within HSERO_RS00915

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Per-strain Table

Position Strand Gene LocusTag Fraction L-Malic (C)
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187,682 + HSERO_RS00900 0.64 -0.2
188,009 + -1.8
188,045 - +0.7
188,056 + +1.1
188,193 + +0.3
188,334 - +0.3
188,740 + HSERO_RS00905 0.15 +0.7
188,741 + HSERO_RS00905 0.15 -0.2
188,748 - HSERO_RS00905 0.15 +1.5
188,759 - HSERO_RS00905 0.15 -0.5
189,056 + HSERO_RS00905 0.23 +1.1
189,208 + HSERO_RS00905 0.27 +0.7
189,339 + HSERO_RS00905 0.31 -0.8
189,347 - HSERO_RS00905 0.31 +1.3
189,348 + HSERO_RS00905 0.31 +0.9
189,628 - HSERO_RS00905 0.39 +0.5
189,633 - +2.4
189,749 + HSERO_RS00905 0.42 -0.1
189,843 + HSERO_RS00905 0.44 +0.6
189,843 + HSERO_RS00905 0.44 +1.0
189,885 - HSERO_RS00905 0.46 +0.5
189,994 + HSERO_RS00905 0.48 +1.4
190,002 - HSERO_RS00905 0.49 +0.9
190,275 - HSERO_RS00905 0.56 +0.6
190,275 - HSERO_RS00905 0.56 +1.4
190,499 + HSERO_RS00905 0.62 +1.2
190,505 - HSERO_RS00905 0.62 +1.2
190,576 - HSERO_RS00905 0.64 +1.2
190,724 + HSERO_RS00905 0.68 +0.7
191,116 - HSERO_RS00905 0.79 +0.8
191,363 - HSERO_RS00905 0.86 +0.5
191,365 + HSERO_RS00905 0.86 +0.1
191,410 - HSERO_RS00905 0.87 +1.0
191,618 - +0.4
191,844 - -0.0
191,862 + -0.3
192,153 + HSERO_RS00910 0.11 -0.9
192,293 + HSERO_RS00910 0.37 +0.3
192,381 + HSERO_RS00910 0.53 -0.9
192,404 - HSERO_RS00910 0.58 -0.4
192,537 + HSERO_RS00910 0.82 -1.1
192,588 + -1.6
192,624 + +0.9
192,882 - HSERO_RS00915 0.14 -1.9

Or see this region's nucleotide sequence