Strain Fitness in Herbaspirillum seropedicae SmR1 around HSERO_RS05555

Experiment: D,L-Lactate (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_RS05545 and HSERO_RS05550 overlap by 4 nucleotidesHSERO_RS05550 and HSERO_RS05555 are separated by 40 nucleotidesHSERO_RS05555 and HSERO_RS05560 overlap by 4 nucleotides HSERO_RS05545: HSERO_RS05545 - transketolase, at 1,255,837 to 1,256,841 _RS05545 HSERO_RS05550: HSERO_RS05550 - transketolase, at 1,256,838 to 1,257,683 _RS05550 HSERO_RS05555: HSERO_RS05555 - ABC transporter permease, at 1,257,724 to 1,259,580 _RS05555 HSERO_RS05560: HSERO_RS05560 - ABC transporter substrate-binding protein, at 1,259,577 to 1,260,623 _RS05560 Position (kb) 1257 1258 1259 1260Strain fitness (log2 ratio) -2 -1 0 1at 1257.037 kb on - strand, within HSERO_RS05550at 1257.063 kb on + strand, within HSERO_RS05550at 1257.364 kb on - strand, within HSERO_RS05550at 1257.364 kb on - strand, within HSERO_RS05550at 1257.444 kb on + strand, within HSERO_RS05550at 1257.533 kb on + strand, within HSERO_RS05550at 1257.584 kb on - strand, within HSERO_RS05550at 1257.603 kb on + strandat 1257.609 kb on + strandat 1257.805 kb on - strandat 1257.864 kb on + strandat 1258.004 kb on + strand, within HSERO_RS05555at 1258.004 kb on + strand, within HSERO_RS05555at 1258.017 kb on - strand, within HSERO_RS05555at 1258.137 kb on - strand, within HSERO_RS05555at 1258.320 kb on - strand, within HSERO_RS05555at 1258.362 kb on + strand, within HSERO_RS05555at 1258.365 kb on - strand, within HSERO_RS05555at 1258.623 kb on + strand, within HSERO_RS05555at 1258.713 kb on - strand, within HSERO_RS05555at 1258.757 kb on + strand, within HSERO_RS05555at 1258.840 kb on - strand, within HSERO_RS05555at 1258.872 kb on + strand, within HSERO_RS05555at 1258.951 kb on - strand, within HSERO_RS05555at 1259.013 kb on - strand, within HSERO_RS05555at 1259.065 kb on + strand, within HSERO_RS05555at 1259.119 kb on - strand, within HSERO_RS05555at 1259.164 kb on - strand, within HSERO_RS05555at 1259.164 kb on - strand, within HSERO_RS05555at 1259.164 kb on - strand, within HSERO_RS05555at 1259.175 kb on - strand, within HSERO_RS05555at 1259.180 kb on - strandat 1259.180 kb on - strand, within HSERO_RS05555at 1259.209 kb on + strand, within HSERO_RS05555at 1259.258 kb on - strand, within HSERO_RS05555at 1259.305 kb on + strand, within HSERO_RS05555at 1259.315 kb on + strand, within HSERO_RS05555at 1259.336 kb on - strand, within HSERO_RS05555at 1259.402 kb on + strandat 1259.409 kb on + strandat 1259.508 kb on - strandat 1259.588 kb on + strandat 1259.596 kb on - strandat 1259.713 kb on + strand, within HSERO_RS05560at 1259.721 kb on - strand, within HSERO_RS05560at 1259.850 kb on + strand, within HSERO_RS05560at 1259.980 kb on + strand, within HSERO_RS05560at 1260.286 kb on - strand, within HSERO_RS05560at 1260.570 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction D,L-Lactate (C)
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1,257,037 - HSERO_RS05550 0.24 -0.9
1,257,063 + HSERO_RS05550 0.27 -0.2
1,257,364 - HSERO_RS05550 0.62 +0.1
1,257,364 - HSERO_RS05550 0.62 -0.5
1,257,444 + HSERO_RS05550 0.72 +0.5
1,257,533 + HSERO_RS05550 0.82 +0.7
1,257,584 - HSERO_RS05550 0.88 -0.2
1,257,603 + -2.1
1,257,609 + +0.7
1,257,805 - +0.1
1,257,864 + +0.6
1,258,004 + HSERO_RS05555 0.15 -0.6
1,258,004 + HSERO_RS05555 0.15 +0.3
1,258,017 - HSERO_RS05555 0.16 +0.6
1,258,137 - HSERO_RS05555 0.22 +1.5
1,258,320 - HSERO_RS05555 0.32 +0.1
1,258,362 + HSERO_RS05555 0.34 +0.1
1,258,365 - HSERO_RS05555 0.35 +0.6
1,258,623 + HSERO_RS05555 0.48 -0.1
1,258,713 - HSERO_RS05555 0.53 +0.8
1,258,757 + HSERO_RS05555 0.56 -0.2
1,258,840 - HSERO_RS05555 0.60 -0.8
1,258,872 + HSERO_RS05555 0.62 +0.8
1,258,951 - HSERO_RS05555 0.66 +0.0
1,259,013 - HSERO_RS05555 0.69 +0.2
1,259,065 + HSERO_RS05555 0.72 +0.2
1,259,119 - HSERO_RS05555 0.75 -0.5
1,259,164 - HSERO_RS05555 0.78 -0.1
1,259,164 - HSERO_RS05555 0.78 +0.5
1,259,164 - HSERO_RS05555 0.78 -0.7
1,259,175 - HSERO_RS05555 0.78 +0.7
1,259,180 - -1.7
1,259,180 - HSERO_RS05555 0.78 -0.7
1,259,209 + HSERO_RS05555 0.80 -0.6
1,259,258 - HSERO_RS05555 0.83 -0.4
1,259,305 + HSERO_RS05555 0.85 +0.1
1,259,315 + HSERO_RS05555 0.86 +0.2
1,259,336 - HSERO_RS05555 0.87 -0.1
1,259,402 + -0.1
1,259,409 + +0.4
1,259,508 - +0.6
1,259,588 + -0.7
1,259,596 - -0.6
1,259,713 + HSERO_RS05560 0.13 -0.9
1,259,721 - HSERO_RS05560 0.14 +0.4
1,259,850 + HSERO_RS05560 0.26 +0.7
1,259,980 + HSERO_RS05560 0.38 -0.1
1,260,286 - HSERO_RS05560 0.68 +0.5
1,260,570 - -0.2

Or see this region's nucleotide sequence