Strain Fitness in Herbaspirillum seropedicae SmR1 around HSERO_RS04405

Experiment: Vogels_fungal_media 0.5X; growth supplemented with 0.4X 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_RS04385 and HSERO_RS04390 overlap by 11 nucleotidesHSERO_RS04390 and HSERO_RS04395 are separated by 88 nucleotidesHSERO_RS04395 and HSERO_RS04400 are separated by 79 nucleotidesHSERO_RS04400 and HSERO_RS04405 overlap by 63 nucleotidesHSERO_RS04405 and HSERO_RS04410 overlap by 10 nucleotidesHSERO_RS04410 and HSERO_RS04415 overlap by 8 nucleotidesHSERO_RS04415 and HSERO_RS04420 are separated by 313 nucleotides HSERO_RS04385: HSERO_RS04385 - replication protein, at 971,843 to 973,894 _RS04385 HSERO_RS04390: HSERO_RS04390 - hypothetical protein, at 973,884 to 974,237 _RS04390 HSERO_RS04395: HSERO_RS04395 - hypothetical protein, at 974,326 to 974,532 _RS04395 HSERO_RS04400: HSERO_RS04400 - transcriptional regulator, at 974,612 to 974,806 _RS04400 HSERO_RS04405: HSERO_RS04405 - transcriptional regulator, at 974,744 to 974,872 _RS04405 HSERO_RS04410: HSERO_RS04410 - hypothetical protein, at 974,863 to 975,060 _RS04410 HSERO_RS04415: HSERO_RS04415 - hypothetical protein, at 975,053 to 975,295 _RS04415 HSERO_RS04420: HSERO_RS04420 - DNA-binding transcriptional regulator, at 975,609 to 976,046 _RS04420 Position (kb) 974 975Strain fitness (log2 ratio) -2 -1 0 1 2 3at 973.849 kb on - strandat 973.856 kb on - strandat 973.938 kb on + strand, within HSERO_RS04390at 973.946 kb on - strand, within HSERO_RS04390at 973.946 kb on - strand, within HSERO_RS04390at 974.118 kb on + strand, within HSERO_RS04390at 974.341 kb on - strandat 974.527 kb on + strandat 974.551 kb on + strandat 974.627 kb on + strandat 974.635 kb on - strand, within HSERO_RS04400at 974.708 kb on + strand, within HSERO_RS04400at 974.708 kb on + strand, within HSERO_RS04400at 974.708 kb on + strand, within HSERO_RS04400at 974.716 kb on - strand, within HSERO_RS04400at 974.736 kb on - strand, within HSERO_RS04400at 974.747 kb on + strandat 974.755 kb on - strandat 974.813 kb on + strand, within HSERO_RS04405at 974.821 kb on - strand, within HSERO_RS04405at 974.861 kb on + strandat 974.908 kb on - strand, within HSERO_RS04410at 974.940 kb on - strand, within HSERO_RS04410at 975.014 kb on + strand, within HSERO_RS04410at 975.014 kb on + strandat 975.022 kb on - strand, within HSERO_RS04410at 975.022 kb on - strand, within HSERO_RS04410at 975.035 kb on + strand, within HSERO_RS04410at 975.035 kb on + strand, within HSERO_RS04410at 975.045 kb on + strandat 975.125 kb on - strand, within HSERO_RS04415at 975.146 kb on - strand, within HSERO_RS04415at 975.153 kb on + strandat 975.153 kb on + strand, within HSERO_RS04415at 975.153 kb on + strand, within HSERO_RS04415at 975.161 kb on - strand, within HSERO_RS04415at 975.161 kb on - strand, within HSERO_RS04415at 975.161 kb on - strand, within HSERO_RS04415at 975.161 kb on - strand, within HSERO_RS04415at 975.163 kb on + strand, within HSERO_RS04415at 975.163 kb on + strand, within HSERO_RS04415at 975.171 kb on - strand, within HSERO_RS04415at 975.171 kb on - strand, within HSERO_RS04415at 975.171 kb on - strandat 975.171 kb on - strand, within HSERO_RS04415at 975.173 kb on - strand, within HSERO_RS04415at 975.173 kb on - strand, within HSERO_RS04415at 975.173 kb on - strand, within HSERO_RS04415at 975.183 kb on + strand, within HSERO_RS04415at 975.301 kb on + strandat 975.310 kb on - strandat 975.310 kb on - strandat 975.335 kb on - strandat 975.352 kb on - strandat 975.396 kb on + strandat 975.396 kb on + strandat 975.404 kb on - strandat 975.404 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Vogels_fungal_media 0.5X; growth supplemented with 0.4X LB
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973,849 - -0.3
973,856 - +0.5
973,938 + HSERO_RS04390 0.15 +0.2
973,946 - HSERO_RS04390 0.18 -0.8
973,946 - HSERO_RS04390 0.18 +0.1
974,118 + HSERO_RS04390 0.66 -0.0
974,341 - -0.6
974,527 + -0.4
974,551 + +0.2
974,627 + -0.0
974,635 - HSERO_RS04400 0.12 -0.6
974,708 + HSERO_RS04400 0.49 -0.1
974,708 + HSERO_RS04400 0.49 -0.2
974,708 + HSERO_RS04400 0.49 -0.2
974,716 - HSERO_RS04400 0.53 -0.3
974,736 - HSERO_RS04400 0.64 -0.6
974,747 + +0.7
974,755 - -0.9
974,813 + HSERO_RS04405 0.53 +1.1
974,821 - HSERO_RS04405 0.60 +0.2
974,861 + -0.5
974,908 - HSERO_RS04410 0.23 -0.3
974,940 - HSERO_RS04410 0.39 +0.2
975,014 + HSERO_RS04410 0.76 +0.8
975,014 + -1.4
975,022 - HSERO_RS04410 0.80 +0.4
975,022 - HSERO_RS04410 0.80 +0.6
975,035 + HSERO_RS04410 0.87 +0.0
975,035 + HSERO_RS04410 0.87 -0.5
975,045 + +2.5
975,125 - HSERO_RS04415 0.30 +0.1
975,146 - HSERO_RS04415 0.38 +0.1
975,153 + +0.9
975,153 + HSERO_RS04415 0.41 -0.2
975,153 + HSERO_RS04415 0.41 +0.3
975,161 - HSERO_RS04415 0.44 -0.7
975,161 - HSERO_RS04415 0.44 +0.1
975,161 - HSERO_RS04415 0.44 -1.1
975,161 - HSERO_RS04415 0.44 +0.4
975,163 + HSERO_RS04415 0.45 +0.0
975,163 + HSERO_RS04415 0.45 -0.2
975,171 - HSERO_RS04415 0.49 -0.2
975,171 - HSERO_RS04415 0.49 -0.9
975,171 - +0.9
975,171 - HSERO_RS04415 0.49 -0.3
975,173 - HSERO_RS04415 0.49 -1.8
975,173 - HSERO_RS04415 0.49 -0.1
975,173 - HSERO_RS04415 0.49 +0.4
975,183 + HSERO_RS04415 0.53 +0.1
975,301 + +0.0
975,310 - +0.6
975,310 - +0.3
975,335 - -0.2
975,352 - +2.8
975,396 + -0.4
975,396 + -0.7
975,404 - -0.4
975,404 - +0.8

Or see this region's nucleotide sequence