Locus 7087

Sequence ID 3R_DroMel_CAF1
Location 18,697,659 – 18,697,756
Length 97
Max. P 0.944452
window11464

overview

Window 4

Location 18,697,659 – 18,697,756
Length 97
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 76.48
Mean single sequence MFE -16.93
Consensus MFE -10.00
Energy contribution -10.08
Covariance contribution 0.09
Combinations/Pair 1.17
Mean z-score -2.08
Structure conservation index 0.59
SVM decision value 1.34
SVM RNA-class probability 0.944452
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18697659 97 - 27905053
AAAAAAAUAAAUGCAAAAAG-----AAAGAAAAGCGAAAGGUAUAAGCGGAAAAGACGAGUUACUUUAUGACUCGGCAAGAUCCUGCAAU-ACAUUCAAGCAG
...........(((......-----.........(....)((((..(((((.....(((((((.....)))))))......))).)).))-))......))). ( -18.50)
>DroSec_CAF1 127937 93 - 1
----AAAUAAAUGCAAAAAG-----AAAGAAAGCCGAAAGGUAUAAGCGGAAAAGACGAGUUACUUUAUGACUCGGCAAGAUCCUGCAAU-ACAUUCAAGCAG
----.......(((......-----.......(((....)))....(((((.....(((((((.....)))))))......))).))...-........))). ( -22.10)
>DroSim_CAF1 126961 93 - 1
----AAAUAAAUGCAAAAAG-----AAAGAAAAGCGAAAGGUAUAAGCGGAAAAGACGAGUUACUUUAUGACUCGGCAAGAUCCUGCAAU-ACAUUCAAGCAG
----.......(((......-----.........(....)((((..(((((.....(((((((.....)))))))......))).)).))-))......))). ( -18.50)
>DroEre_CAF1 131124 89 - 1
----AA---GAUGU------AAAGGAAAUAGAAGCGAAAAGUAUAAGCGGAAAAGACGAGUUACUUUAUGACUCGGCAAGAUCCUGCGAU-ACAUUCAAGCAG
----..---(((((------(.((((.......((...........))........(((((((.....)))))))......))))....)-)))))....... ( -16.70)
>DroWil_CAF1 123888 92 - 1
----AACA----GCAAAAAAAAAGGAAGAAAAAAAGAAA---AUAGGGCCCAAAGACGAGUUACUUUAUGACUCGACAAGAUUCUGCGGCAACAUUUAAGUAA
----....----.........................((---((...(((...((((((((((.....))))))).......)))..)))...))))...... ( -11.91)
>DroAna_CAF1 120750 77 - 1
-----------------AAG-----A---AAAGGCGAAAAGUAUAAGCGGAAAAGACGAGUUACUUUAUGACUCGGCAAGAUCCUGUAAU-ACAUUCAGGCAG
-----------------...-----.---...(.(..((.((((..(((((.....(((((((.....)))))))......))).)).))-)).))..).).. ( -13.90)
>consensus
____AAAU_AAUGCAAAAAG_____AAAGAAAAGCGAAAGGUAUAAGCGGAAAAGACGAGUUACUUUAUGACUCGGCAAGAUCCUGCAAU_ACAUUCAAGCAG
..............................................((........(((((((.....)))))))(((......)))............)).. (-10.00 = -10.08 +   0.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:03 2006