Locus 5371

Sequence ID X_DroMel_CAF1
Location 13,969,501 – 13,969,592
Length 91
Max. P 0.859368
window8716

overview

Window 6

Location 13,969,501 – 13,969,592
Length 91
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 77.62
Mean single sequence MFE -22.53
Consensus MFE -14.78
Energy contribution -15.94
Covariance contribution 1.16
Combinations/Pair 1.12
Mean z-score -1.83
Structure conservation index 0.66
SVM decision value 0.82
SVM RNA-class probability 0.859368
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13969501 91 + 22224390
CACCUUUUGGGCUCUUUUGACAGUUUAAAGACCAG-------------------AAAUAGCAAAAACGAGAGCCACCAAAUUGGUUCUGUAAUUUGAACUGUUGAGUAUU
..((....))((((....(((((((((((....(.-------------------...).......((.(((((((......)))))))))..)))))))))))))))... ( -22.70)
>DroPse_CAF1 100272 107 + 1
CACCUUUGGGGU---UUUGACAGUUUAAAGACCAACGAAACGAAACGAAAAAAAAACAACAAAUAACGAUAGCCCCCAAAUUGGUUUUGUAAUAUGAACUGUUUUUGGGG
..((....))((---((((...(((....)))...))))))................................(((((((.((((((........))))))..))))))) ( -19.00)
>DroSec_CAF1 2701 91 + 1
CACCUUUUGGAUUCUUUUGACAGUUUAAAGACCGA-------------------AAAUAGCAAAAACGAGAGCCACCAAAUUGGUUCUGUAAUUUGAACUGUUGAGUAUU
..((....)).....((..((((((((((...((.-------------------............))(((((((......)))))))....))))))))))..)).... ( -21.22)
>DroSim_CAF1 2772 91 + 1
CACCUUUUGGGUUCUUUUGACAGUUUAAAGACCGA-------------------AAAUAGCAAAAACGAGAGCCACCAAAUUGGUUCUGUAAUUUGAACUGUUGAGUAUU
.(((.....)))...((..((((((((((...((.-------------------............))(((((((......)))))))....))))))))))..)).... ( -21.52)
>DroYak_CAF1 3136 99 + 1
CAACUUUUGGGCUCGUUUGACAGUUUGAAGACCAG--------AACUAUAG---AAAUAGCAAAACCAAGAGCCGCCAAAUUGGUUCUGUAAUUUAAACUGUUGAGCAUU
..............(((..((((((((((...(((--------(((((...---.....((..........))........))))))))...))))))))))..)))... ( -28.19)
>consensus
CACCUUUUGGGUUCUUUUGACAGUUUAAAGACCAA___________________AAAUAGCAAAAACGAGAGCCACCAAAUUGGUUCUGUAAUUUGAACUGUUGAGUAUU
..((....)).....((((((((((((((..............................(......).(((((((......)))))))....)))))))))))))).... (-14.78 = -15.94 +   1.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:21 2006