Strain Fitness in Pseudomonas putida KT2440 around PP_5454

Experiment: R2A with Polymyxin B sulfate 0.002 mg/ml

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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 ntPP_0654 and PP_0655 are separated by 53 nucleotidesPP_0655 and PP_5454 overlap by 4 nucleotidesPP_5454 and PP_0656 are separated by 61 nucleotidesPP_0656 and PP_0657 overlap by 4 nucleotides PP_0654: PP_0654 - putative malate dehydrogenase, at 761,969 to 762,901 _0654 PP_0655: PP_0655 - Fimbrial protein-related protein, at 762,955 to 763,281 _0655 PP_5454: PP_5454 - conserved membrane protein of unknown function, at 763,278 to 763,637 _5454 PP_0656: PP_0656 - putative Amino acid ABC transporter, permease protein, at 763,699 to 764,520 _0656 PP_0657: PP_0657 - putative Amino acid ABC transporter, periplasmic amino acid-binding protein, at 764,517 to 765,344 _0657 Position (kb) 763 764Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 762.350 kb on + strand, within PP_0654at 762.351 kb on - strand, within PP_0654at 762.469 kb on + strand, within PP_0654at 762.524 kb on + strand, within PP_0654at 762.524 kb on + strand, within PP_0654at 762.524 kb on + strand, within PP_0654at 762.601 kb on + strand, within PP_0654at 762.710 kb on - strand, within PP_0654at 762.710 kb on - strand, within PP_0654at 762.744 kb on - strand, within PP_0654at 762.899 kb on + strandat 762.900 kb on - strandat 762.900 kb on - strandat 762.964 kb on + strandat 762.964 kb on + strandat 763.003 kb on + strand, within PP_0655at 763.004 kb on - strand, within PP_0655at 763.016 kb on + strand, within PP_0655at 763.016 kb on + strand, within PP_0655at 763.016 kb on + strand, within PP_0655at 763.017 kb on - strand, within PP_0655at 763.017 kb on - strand, within PP_0655at 763.017 kb on - strand, within PP_0655at 763.017 kb on - strand, within PP_0655at 763.017 kb on - strand, within PP_0655at 763.081 kb on + strand, within PP_0655at 763.081 kb on + strand, within PP_0655at 763.081 kb on + strand, within PP_0655at 763.082 kb on - strandat 763.082 kb on - strand, within PP_0655at 763.108 kb on + strand, within PP_0655at 763.176 kb on + strand, within PP_0655at 763.177 kb on - strand, within PP_0655at 763.177 kb on - strand, within PP_0655at 763.177 kb on - strand, within PP_0655at 763.177 kb on - strand, within PP_0655at 763.300 kb on + strandat 763.345 kb on + strand, within PP_5454at 763.345 kb on + strand, within PP_5454at 763.346 kb on - strand, within PP_5454at 763.346 kb on - strand, within PP_5454at 763.364 kb on + strand, within PP_5454at 763.364 kb on + strand, within PP_5454at 763.365 kb on - strand, within PP_5454at 763.365 kb on - strand, within PP_5454at 763.365 kb on - strand, within PP_5454at 763.369 kb on - strand, within PP_5454at 763.369 kb on - strand, within PP_5454at 763.378 kb on - strand, within PP_5454at 763.380 kb on + strand, within PP_5454at 763.380 kb on + strand, within PP_5454at 763.380 kb on + strand, within PP_5454at 763.381 kb on - strand, within PP_5454at 763.381 kb on - strand, within PP_5454at 763.393 kb on + strand, within PP_5454at 763.403 kb on + strand, within PP_5454at 763.403 kb on + strand, within PP_5454at 763.404 kb on - strand, within PP_5454at 763.404 kb on - strand, within PP_5454at 763.494 kb on - strand, within PP_5454at 763.494 kb on - strand, within PP_5454at 763.494 kb on - strand, within PP_5454at 763.630 kb on - strandat 763.630 kb on - strandat 763.709 kb on + strandat 763.709 kb on + strandat 763.709 kb on + strandat 763.709 kb on + strandat 763.710 kb on - strandat 763.775 kb on + strandat 763.775 kb on + strandat 763.775 kb on + strandat 763.776 kb on - strandat 763.776 kb on - strandat 763.776 kb on - strandat 763.808 kb on + strand, within PP_0656at 763.814 kb on + strand, within PP_0656at 763.814 kb on + strand, within PP_0656at 764.058 kb on - strand, within PP_0656at 764.066 kb on + strand, within PP_0656at 764.067 kb on - strand, within PP_0656at 764.138 kb on + strand, within PP_0656at 764.139 kb on - strand, within PP_0656at 764.139 kb on - strand, within PP_0656at 764.189 kb on + strand, within PP_0656at 764.189 kb on + strandat 764.190 kb on - strand, within PP_0656at 764.190 kb on - strand, within PP_0656at 764.266 kb on + strand, within PP_0656at 764.527 kb on - strandat 764.601 kb on + strand, within PP_0657at 764.601 kb on + strand, within PP_0657

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Per-strain Table

Position Strand Gene LocusTag Fraction R2A with Polymyxin B sulfate 0.002 mg/ml
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762,350 + PP_0654 0.41 -1.3
762,351 - PP_0654 0.41 +1.0
762,469 + PP_0654 0.54 +0.7
762,524 + PP_0654 0.59 +0.3
762,524 + PP_0654 0.59 -2.1
762,524 + PP_0654 0.59 -1.6
762,601 + PP_0654 0.68 -0.4
762,710 - PP_0654 0.79 -2.9
762,710 - PP_0654 0.79 +0.9
762,744 - PP_0654 0.83 -2.0
762,899 + +0.1
762,900 - -0.1
762,900 - +0.1
762,964 + -0.3
762,964 + -0.0
763,003 + PP_0655 0.15 +0.1
763,004 - PP_0655 0.15 +0.2
763,016 + PP_0655 0.19 -1.9
763,016 + PP_0655 0.19 +0.4
763,016 + PP_0655 0.19 -1.6
763,017 - PP_0655 0.19 -1.3
763,017 - PP_0655 0.19 +1.1
763,017 - PP_0655 0.19 -0.0
763,017 - PP_0655 0.19 +1.6
763,017 - PP_0655 0.19 -1.0
763,081 + PP_0655 0.39 -1.1
763,081 + PP_0655 0.39 -0.9
763,081 + PP_0655 0.39 +0.5
763,082 - +1.2
763,082 - PP_0655 0.39 -1.4
763,108 + PP_0655 0.47 -1.2
763,176 + PP_0655 0.68 +0.8
763,177 - PP_0655 0.68 -0.4
763,177 - PP_0655 0.68 +0.0
763,177 - PP_0655 0.68 +1.1
763,177 - PP_0655 0.68 -0.5
763,300 + +0.0
763,345 + PP_5454 0.19 -2.0
763,345 + PP_5454 0.19 -1.2
763,346 - PP_5454 0.19 -1.0
763,346 - PP_5454 0.19 -1.3
763,364 + PP_5454 0.24 -2.2
763,364 + PP_5454 0.24 -0.4
763,365 - PP_5454 0.24 +1.4
763,365 - PP_5454 0.24 -0.2
763,365 - PP_5454 0.24 -0.4
763,369 - PP_5454 0.25 -2.3
763,369 - PP_5454 0.25 -0.6
763,378 - PP_5454 0.28 -0.6
763,380 + PP_5454 0.28 +0.3
763,380 + PP_5454 0.28 -2.0
763,380 + PP_5454 0.28 -0.1
763,381 - PP_5454 0.29 -2.5
763,381 - PP_5454 0.29 -2.5
763,393 + PP_5454 0.32 +1.5
763,403 + PP_5454 0.35 +0.0
763,403 + PP_5454 0.35 +0.8
763,404 - PP_5454 0.35 -1.3
763,404 - PP_5454 0.35 -0.1
763,494 - PP_5454 0.60 +1.2
763,494 - PP_5454 0.60 +0.1
763,494 - PP_5454 0.60 -0.7
763,630 - +0.9
763,630 - -2.3
763,709 + -0.0
763,709 + -0.3
763,709 + +0.4
763,709 + -0.6
763,710 - +0.5
763,775 + -0.8
763,775 + -1.1
763,775 + +1.0
763,776 - -1.0
763,776 - -0.6
763,776 - -2.2
763,808 + PP_0656 0.13 +2.7
763,814 + PP_0656 0.14 +1.5
763,814 + PP_0656 0.14 +2.0
764,058 - PP_0656 0.44 -0.4
764,066 + PP_0656 0.45 -1.3
764,067 - PP_0656 0.45 -0.1
764,138 + PP_0656 0.53 -1.4
764,139 - PP_0656 0.54 -0.0
764,139 - PP_0656 0.54 +0.1
764,189 + PP_0656 0.60 -1.4
764,189 + +1.8
764,190 - PP_0656 0.60 +0.5
764,190 - PP_0656 0.60 +1.0
764,266 + PP_0656 0.69 -2.5
764,527 - -0.5
764,601 + PP_0657 0.10 -1.7
764,601 + PP_0657 0.10 -2.0

Or see this region's nucleotide sequence