Strain Fitness in Herbaspirillum seropedicae SmR1 around HSERO_RS05820

Experiment: Plant assay with Setaria viridis; 10 days of inoculation with plant; outgrowth in LB

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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_RS05810 and HSERO_RS05815 overlap by 19 nucleotidesHSERO_RS05815 and HSERO_RS05820 are separated by 53 nucleotidesHSERO_RS05820 and HSERO_RS05825 are separated by 376 nucleotides HSERO_RS05810: HSERO_RS05810 - sulfurtransferase, at 1,324,540 to 1,325,463 _RS05810 HSERO_RS05815: HSERO_RS05815 - osmotically inducible protein C, at 1,325,445 to 1,325,831 _RS05815 HSERO_RS05820: HSERO_RS05820 - IclR family transcriptional regulator, at 1,325,885 to 1,326,676 _RS05820 HSERO_RS05825: HSERO_RS05825 - ABC transporter substrate-binding protein, at 1,327,053 to 1,327,799 _RS05825 Position (kb) 1325 1326 1327Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 1325.177 kb on - strand, within HSERO_RS05810at 1325.177 kb on - strand, within HSERO_RS05810at 1325.177 kb on - strand, within HSERO_RS05810at 1325.395 kb on + strandat 1325.450 kb on - strandat 1325.534 kb on - strand, within HSERO_RS05815at 1325.618 kb on + strand, within HSERO_RS05815at 1325.633 kb on + strand, within HSERO_RS05815at 1325.634 kb on + strand, within HSERO_RS05815at 1325.819 kb on - strandat 1325.883 kb on + strandat 1325.883 kb on + strandat 1326.015 kb on - strand, within HSERO_RS05820at 1326.173 kb on + strand, within HSERO_RS05820at 1326.237 kb on + strand, within HSERO_RS05820at 1326.445 kb on + strand, within HSERO_RS05820at 1326.453 kb on - strand, within HSERO_RS05820at 1326.458 kb on - strand, within HSERO_RS05820at 1326.471 kb on + strand, within HSERO_RS05820at 1326.489 kb on - strand, within HSERO_RS05820at 1326.526 kb on + strand, within HSERO_RS05820at 1326.571 kb on + strand, within HSERO_RS05820at 1326.691 kb on - strandat 1326.902 kb on - strandat 1326.905 kb on + strandat 1326.913 kb on - strandat 1326.913 kb on - strandat 1327.102 kb on - strandat 1327.113 kb on + strandat 1327.155 kb on + strand, within HSERO_RS05825at 1327.249 kb on + strand, within HSERO_RS05825at 1327.303 kb on - strand, within HSERO_RS05825at 1327.333 kb on - strand, within HSERO_RS05825at 1327.421 kb on - strand, within HSERO_RS05825at 1327.439 kb on + strand, within HSERO_RS05825at 1327.471 kb on + strand, within HSERO_RS05825at 1327.474 kb on - strand, within HSERO_RS05825at 1327.493 kb on + strand, within HSERO_RS05825at 1327.501 kb on - strand, within HSERO_RS05825at 1327.501 kb on - strand, within HSERO_RS05825at 1327.555 kb on + strand, within HSERO_RS05825at 1327.579 kb on - strand, within HSERO_RS05825

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Per-strain Table

Position Strand Gene LocusTag Fraction Plant assay with Setaria viridis; 10 days of inoculation with plant; outgrowth in LB
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1,325,177 - HSERO_RS05810 0.69 +1.3
1,325,177 - HSERO_RS05810 0.69 -0.4
1,325,177 - HSERO_RS05810 0.69 +0.8
1,325,395 + -0.1
1,325,450 - +0.4
1,325,534 - HSERO_RS05815 0.23 -3.4
1,325,618 + HSERO_RS05815 0.45 -1.0
1,325,633 + HSERO_RS05815 0.49 -1.1
1,325,634 + HSERO_RS05815 0.49 +0.4
1,325,819 - +0.6
1,325,883 + -0.7
1,325,883 + -0.7
1,326,015 - HSERO_RS05820 0.16 -1.0
1,326,173 + HSERO_RS05820 0.36 -1.8
1,326,237 + HSERO_RS05820 0.44 -0.6
1,326,445 + HSERO_RS05820 0.71 -1.8
1,326,453 - HSERO_RS05820 0.72 -0.9
1,326,458 - HSERO_RS05820 0.72 -1.7
1,326,471 + HSERO_RS05820 0.74 -1.9
1,326,489 - HSERO_RS05820 0.76 -1.6
1,326,526 + HSERO_RS05820 0.81 -0.4
1,326,571 + HSERO_RS05820 0.87 -1.5
1,326,691 - +1.8
1,326,902 - +0.3
1,326,905 + -0.9
1,326,913 - -0.1
1,326,913 - -0.6
1,327,102 - +0.2
1,327,113 + +0.3
1,327,155 + HSERO_RS05825 0.14 -0.7
1,327,249 + HSERO_RS05825 0.26 +0.8
1,327,303 - HSERO_RS05825 0.33 +0.1
1,327,333 - HSERO_RS05825 0.37 -1.1
1,327,421 - HSERO_RS05825 0.49 -0.3
1,327,439 + HSERO_RS05825 0.52 +0.4
1,327,471 + HSERO_RS05825 0.56 +0.5
1,327,474 - HSERO_RS05825 0.56 -0.5
1,327,493 + HSERO_RS05825 0.59 -0.8
1,327,501 - HSERO_RS05825 0.60 +1.8
1,327,501 - HSERO_RS05825 0.60 -0.2
1,327,555 + HSERO_RS05825 0.67 +0.2
1,327,579 - HSERO_RS05825 0.70 -0.6

Or see this region's nucleotide sequence