Locus 6054

Sequence ID X_DroMel_CAF1
Location 15,543,549 – 15,543,662
Length 113
Max. P 0.784667
window9838 window9839

overview

Window 8

Location 15,543,549 – 15,543,662
Length 113
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 86.51
Mean single sequence MFE -27.97
Consensus MFE -25.44
Energy contribution -25.07
Covariance contribution -0.38
Combinations/Pair 1.20
Mean z-score -1.38
Structure conservation index 0.91
SVM decision value 0.19
SVM RNA-class probability 0.624872
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15543549 113 + 22224390
AUAUAAAAUACAUUUGA-------UGGACAUUUUGCAGAUCCUUGGAAGCAUUGUGCCCGGUCUUUUCCCGCCAUUAUUUCUAUGGGCAGCACAGUUCAAUUAACAGGAUCACGUUCAAG
.................-------(((((........((((((...((..(((((((.(((.......)))((((.......))))...)))))))....))...))))))..))))).. ( -21.40)
>DroSec_CAF1 5430 119 + 1
-UUUAAAAUACAUUUGAUUUUAAAUGAACAUUUUGCAGAUCCUGGGCAGCACUGUGCCCGGUCUUUUCCCGCCAUUAUUUCCAUGGGCAGCACAGUUCAAUUAACAGGAUCAUGUUCAUG
-.(((((((.(....))))))))((((((((......(((((((......(((((((..((......)).(((............))).)))))))........))))))))))))))). ( -33.14)
>DroSim_CAF1 3563 119 + 1
-UUUAAAAUACAUUUGAUUUUAAAUGAACAUUUUGCAGAUCCUGGGCAGCACUGUGCCCGGUCUUUUCCCGCCAUUAUUUCCAUGGGCAGCACAGUUCAAUUAACAGGAUCAUGUUCAAG
-((((((((.(....)))))))))(((((((......(((((((......(((((((..((......)).(((............))).)))))))........)))))))))))))).. ( -32.64)
>DroYak_CAF1 5430 120 + 1
AUUUACCAUACAAUUUAAUUUAAAGGAACAUUUUGCAGAUCCUGGGCAGCACUGUGUCUGUUAUUUUGGCGCCUUUAUUUCUAUGGGUAGCACUGUUCAAUUUACAGGAUCAUGUUCAAG
.........................((((((......((((((((((.((...(((.....)))....)))))..........((..((....))..)).....)))))))))))))... ( -24.70)
>consensus
_UUUAAAAUACAUUUGAUUUUAAAUGAACAUUUUGCAGAUCCUGGGCAGCACUGUGCCCGGUCUUUUCCCGCCAUUAUUUCCAUGGGCAGCACAGUUCAAUUAACAGGAUCAUGUUCAAG
.........................((((((......(((((((......(((((((..((.......))(((............))).)))))))........)))))))))))))... (-25.44 = -25.07 +  -0.38)

alignment

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secondary structure

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dotplot

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Window 9

Location 15,543,549 – 15,543,662
Length 113
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 86.51
Mean single sequence MFE -29.35
Consensus MFE -23.33
Energy contribution -24.64
Covariance contribution 1.31
Combinations/Pair 1.07
Mean z-score -1.77
Structure conservation index 0.79
SVM decision value 0.57
SVM RNA-class probability 0.784667
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15543549 113 - 22224390
CUUGAACGUGAUCCUGUUAAUUGAACUGUGCUGCCCAUAGAAAUAAUGGCGGGAAAAGACCGGGCACAAUGCUUCCAAGGAUCUGCAAAAUGUCCA-------UCAAAUGUAUUUUAUAU
.((((......((((((((......(((((.....)))))......)))))))).......(((((...(((.((....))...)))...))))).-------))))............. ( -25.10)
>DroSec_CAF1 5430 119 - 1
CAUGAACAUGAUCCUGUUAAUUGAACUGUGCUGCCCAUGGAAAUAAUGGCGGGAAAAGACCGGGCACAGUGCUGCCCAGGAUCUGCAAAAUGUUCAUUUAAAAUCAAAUGUAUUUUAAA-
.(((((((((((((((........((((((((..((((.......))))(((.......)))))))))))......)))))))......))))))))((((((((....).))))))).- ( -36.74)
>DroSim_CAF1 3563 119 - 1
CUUGAACAUGAUCCUGUUAAUUGAACUGUGCUGCCCAUGGAAAUAAUGGCGGGAAAAGACCGGGCACAGUGCUGCCCAGGAUCUGCAAAAUGUUCAUUUAAAAUCAAAUGUAUUUUAAA-
..((((((((((((((........((((((((..((((.......))))(((.......)))))))))))......)))))))......)))))))(((((((((....).))))))))- ( -36.24)
>DroYak_CAF1 5430 120 - 1
CUUGAACAUGAUCCUGUAAAUUGAACAGUGCUACCCAUAGAAAUAAAGGCGCCAAAAUAACAGACACAGUGCUGCCCAGGAUCUGCAAAAUGUUCCUUUAAAUUAAAUUGUAUGGUAAAU
...(((((((((((((...........(((((.....((....))..)))))........(((.(.....))))..)))))))......))))))......................... ( -19.30)
>consensus
CUUGAACAUGAUCCUGUUAAUUGAACUGUGCUGCCCAUAGAAAUAAUGGCGGGAAAAGACCGGGCACAGUGCUGCCCAGGAUCUGCAAAAUGUUCAUUUAAAAUCAAAUGUAUUUUAAA_
...(((((((((((((........(((((((((((..((....))..)))((.......)).))))))))......)))))))......))))))......................... (-23.33 = -24.64 +   1.31)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:03 2006