Strain Fitness in Shewanella oneidensis MR-1 around SO0027

Experiment: LB - with RNA protect

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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 ntSO0025 and SO0026 are separated by 64 nucleotidesSO0026 and SO0027 are separated by 200 nucleotidesSO0027 and trkH-2 are separated by 41 nucleotides SO0025: SO0025 - hypothetical flavodoxin (NCBI ptt file), at 30,558 to 31,082 SO0025 SO0026: SO0026 - transcriptional regulator, ArsR family (NCBI ptt file), at 31,147 to 31,455 SO0026 SO0027: SO0027 - protoporphyrinogen oxidase, putative (NCBI ptt file), at 31,656 to 32,210 SO0027 SO0028: trkH-2 - potassium uptake protein TrkH (NCBI ptt file), at 32,252 to 33,694 trkH-2 Position (kb) 31 32 33Strain fitness (log2 ratio) -2 -1 0 1 2 3at 30.664 kb on + strand, within SO0025at 30.664 kb on + strand, within SO0025at 30.664 kb on + strand, within SO0025at 30.664 kb on + strand, within SO0025at 30.664 kb on + strand, within SO0025at 30.672 kb on - strand, within SO0025at 30.677 kb on - strand, within SO0025at 30.681 kb on + strand, within SO0025at 30.681 kb on + strand, within SO0025at 30.681 kb on + strand, within SO0025at 30.681 kb on + strand, within SO0025at 30.689 kb on + strand, within SO0025at 30.689 kb on - strand, within SO0025at 30.689 kb on - strand, within SO0025at 30.689 kb on - strand, within SO0025at 30.689 kb on - strand, within SO0025at 30.689 kb on - strand, within SO0025at 30.707 kb on + strand, within SO0025at 30.735 kb on + strand, within SO0025at 30.743 kb on - strand, within SO0025at 30.743 kb on - strand, within SO0025at 30.745 kb on + strand, within SO0025at 30.748 kb on - strand, within SO0025at 30.753 kb on - strand, within SO0025at 30.909 kb on + strand, within SO0025at 30.984 kb on - strand, within SO0025at 31.029 kb on - strand, within SO0025at 31.029 kb on - strand, within SO0025at 31.099 kb on + strandat 31.106 kb on - strandat 31.126 kb on + strandat 31.134 kb on - strandat 31.152 kb on - strandat 31.173 kb on - strandat 31.210 kb on - strand, within SO0026at 31.232 kb on + strand, within SO0026at 31.269 kb on + strand, within SO0026at 31.338 kb on - strand, within SO0026at 31.388 kb on + strand, within SO0026at 31.516 kb on + strandat 31.516 kb on + strandat 31.589 kb on + strandat 31.673 kb on + strandat 31.729 kb on + strand, within SO0027at 31.734 kb on + strand, within SO0027at 31.737 kb on - strand, within SO0027at 31.737 kb on - strand, within SO0027at 31.744 kb on + strand, within SO0027at 31.752 kb on - strand, within SO0027at 31.752 kb on - strand, within SO0027at 31.759 kb on - strand, within SO0027at 31.764 kb on + strand, within SO0027at 31.823 kb on + strand, within SO0027at 31.844 kb on - strand, within SO0027at 31.856 kb on - strand, within SO0027at 31.875 kb on + strand, within SO0027at 31.881 kb on + strand, within SO0027at 31.884 kb on + strand, within SO0027at 31.892 kb on - strand, within SO0027at 31.898 kb on - strand, within SO0027at 31.936 kb on + strand, within SO0027at 32.001 kb on + strand, within SO0027at 32.016 kb on + strand, within SO0027at 32.051 kb on + strand, within SO0027at 32.059 kb on - strand, within SO0027at 32.061 kb on + strand, within SO0027at 32.069 kb on - strand, within SO0027at 32.167 kb on - strandat 32.172 kb on + strandat 32.175 kb on + strandat 32.175 kb on + strandat 32.276 kb on + strandat 32.276 kb on + strandat 32.284 kb on - strandat 32.284 kb on - strandat 32.322 kb on + strandat 32.366 kb on - strandat 32.389 kb on + strandat 32.403 kb on - strand, within trkH-2at 32.403 kb on - strand, within trkH-2at 32.406 kb on + strand, within trkH-2at 32.406 kb on + strand, within trkH-2at 32.419 kb on - strand, within trkH-2at 32.450 kb on + strand, within trkH-2at 32.450 kb on + strand, within trkH-2at 32.450 kb on + strand, within trkH-2at 32.458 kb on - strand, within trkH-2at 32.458 kb on - strand, within trkH-2at 32.468 kb on - strand, within trkH-2at 32.478 kb on - strand, within trkH-2at 32.509 kb on + strand, within trkH-2at 32.509 kb on + strand, within trkH-2at 32.509 kb on + strand, within trkH-2at 32.509 kb on + strand, within trkH-2at 32.517 kb on - strand, within trkH-2at 32.517 kb on - strand, within trkH-2at 32.517 kb on - strand, within trkH-2at 32.517 kb on - strand, within trkH-2at 32.517 kb on - strand, within trkH-2at 32.552 kb on - strand, within trkH-2at 32.558 kb on - strand, within trkH-2at 32.655 kb on - strand, within trkH-2at 32.668 kb on + strand, within trkH-2at 32.730 kb on + strand, within trkH-2at 32.747 kb on + strand, within trkH-2at 32.798 kb on - strand, within trkH-2at 32.818 kb on + strand, within trkH-2at 32.890 kb on - strand, within trkH-2at 32.891 kb on - strand, within trkH-2at 32.891 kb on - strand, within trkH-2at 32.900 kb on + strand, within trkH-2at 32.908 kb on + strand, within trkH-2at 32.908 kb on - strand, within trkH-2at 32.935 kb on + strand, within trkH-2at 32.940 kb on + strand, within trkH-2at 32.948 kb on - strand, within trkH-2at 32.948 kb on - strand, within trkH-2at 32.950 kb on - strand, within trkH-2at 32.988 kb on - strand, within trkH-2at 33.068 kb on + strand, within trkH-2at 33.075 kb on + strand, within trkH-2at 33.083 kb on - strand, within trkH-2

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Per-strain Table

Position Strand Gene LocusTag Fraction LB - with RNA protect
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30,664 + SO0025 0.20 -0.9
30,664 + SO0025 0.20 +0.3
30,664 + SO0025 0.20 -0.9
30,664 + SO0025 0.20 -0.2
30,664 + SO0025 0.20 -0.8
30,672 - SO0025 0.22 -0.2
30,677 - SO0025 0.23 +0.2
30,681 + SO0025 0.23 -0.9
30,681 + SO0025 0.23 -0.1
30,681 + SO0025 0.23 -0.6
30,681 + SO0025 0.23 -0.9
30,689 + SO0025 0.25 -0.9
30,689 - SO0025 0.25 -0.9
30,689 - SO0025 0.25 -1.6
30,689 - SO0025 0.25 +1.7
30,689 - SO0025 0.25 -0.2
30,689 - SO0025 0.25 -0.8
30,707 + SO0025 0.28 +0.6
30,735 + SO0025 0.34 -1.7
30,743 - SO0025 0.35 -1.2
30,743 - SO0025 0.35 +1.7
30,745 + SO0025 0.36 +2.2
30,748 - SO0025 0.36 +0.4
30,753 - SO0025 0.37 -1.7
30,909 + SO0025 0.67 -0.4
30,984 - SO0025 0.81 -0.3
31,029 - SO0025 0.90 +0.0
31,029 - SO0025 0.90 +0.4
31,099 + +1.1
31,106 - +0.1
31,126 + -0.3
31,134 - +0.3
31,152 - -0.0
31,173 - -0.5
31,210 - SO0026 0.20 +0.0
31,232 + SO0026 0.28 +0.2
31,269 + SO0026 0.39 -2.7
31,338 - SO0026 0.62 +0.1
31,388 + SO0026 0.78 -0.2
31,516 + +0.4
31,516 + -0.5
31,589 + +0.5
31,673 + -0.2
31,729 + SO0027 0.13 -0.3
31,734 + SO0027 0.14 +0.3
31,737 - SO0027 0.15 +0.8
31,737 - SO0027 0.15 -0.4
31,744 + SO0027 0.16 -0.2
31,752 - SO0027 0.17 +3.4
31,752 - SO0027 0.17 +0.1
31,759 - SO0027 0.19 +0.1
31,764 + SO0027 0.19 +1.4
31,823 + SO0027 0.30 -0.0
31,844 - SO0027 0.34 +2.4
31,856 - SO0027 0.36 -0.1
31,875 + SO0027 0.39 +1.0
31,881 + SO0027 0.41 -0.2
31,884 + SO0027 0.41 +0.4
31,892 - SO0027 0.43 +1.0
31,898 - SO0027 0.44 +1.2
31,936 + SO0027 0.50 -0.4
32,001 + SO0027 0.62 +0.1
32,016 + SO0027 0.65 -0.2
32,051 + SO0027 0.71 +0.1
32,059 - SO0027 0.73 +0.6
32,061 + SO0027 0.73 +0.9
32,069 - SO0027 0.74 +1.1
32,167 - +0.6
32,172 + -0.7
32,175 + -1.3
32,175 + +0.3
32,276 + +1.3
32,276 + +0.6
32,284 - +0.2
32,284 - +0.2
32,322 + -0.8
32,366 - -0.4
32,389 + +0.6
32,403 - trkH-2 SO0028 0.10 +0.7
32,403 - trkH-2 SO0028 0.10 +0.2
32,406 + trkH-2 SO0028 0.11 +0.2
32,406 + trkH-2 SO0028 0.11 +0.6
32,419 - trkH-2 SO0028 0.12 -0.5
32,450 + trkH-2 SO0028 0.14 -0.5
32,450 + trkH-2 SO0028 0.14 +1.4
32,450 + trkH-2 SO0028 0.14 -0.1
32,458 - trkH-2 SO0028 0.14 +0.3
32,458 - trkH-2 SO0028 0.14 +0.3
32,468 - trkH-2 SO0028 0.15 +0.0
32,478 - trkH-2 SO0028 0.16 -0.9
32,509 + trkH-2 SO0028 0.18 -0.4
32,509 + trkH-2 SO0028 0.18 -0.5
32,509 + trkH-2 SO0028 0.18 +0.7
32,509 + trkH-2 SO0028 0.18 +0.4
32,517 - trkH-2 SO0028 0.18 -0.0
32,517 - trkH-2 SO0028 0.18 +0.1
32,517 - trkH-2 SO0028 0.18 -0.2
32,517 - trkH-2 SO0028 0.18 +0.4
32,517 - trkH-2 SO0028 0.18 +0.8
32,552 - trkH-2 SO0028 0.21 +0.7
32,558 - trkH-2 SO0028 0.21 -0.5
32,655 - trkH-2 SO0028 0.28 -0.2
32,668 + trkH-2 SO0028 0.29 -0.3
32,730 + trkH-2 SO0028 0.33 -0.5
32,747 + trkH-2 SO0028 0.34 -1.6
32,798 - trkH-2 SO0028 0.38 +0.2
32,818 + trkH-2 SO0028 0.39 +0.4
32,890 - trkH-2 SO0028 0.44 -0.1
32,891 - trkH-2 SO0028 0.44 +1.0
32,891 - trkH-2 SO0028 0.44 -0.9
32,900 + trkH-2 SO0028 0.45 -2.1
32,908 + trkH-2 SO0028 0.45 -0.4
32,908 - trkH-2 SO0028 0.45 +1.0
32,935 + trkH-2 SO0028 0.47 -0.1
32,940 + trkH-2 SO0028 0.48 -0.2
32,948 - trkH-2 SO0028 0.48 +0.5
32,948 - trkH-2 SO0028 0.48 -1.1
32,950 - trkH-2 SO0028 0.48 +0.4
32,988 - trkH-2 SO0028 0.51 +0.5
33,068 + trkH-2 SO0028 0.57 -1.2
33,075 + trkH-2 SO0028 0.57 -0.3
33,083 - trkH-2 SO0028 0.58 -0.4

Or see this region's nucleotide sequence