Locus 4988

Sequence ID 2L_DroMel_CAF1
Location 14,372,065 – 14,372,181
Length 116
Max. P 0.839716
window7924

overview

Window 4

Location 14,372,065 – 14,372,181
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 76.14
Mean single sequence MFE -21.06
Consensus MFE -10.80
Energy contribution -13.40
Covariance contribution 2.60
Combinations/Pair 1.24
Mean z-score -1.98
Structure conservation index 0.51
SVM decision value 0.75
SVM RNA-class probability 0.839716
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14372065 116 + 22407834
CAAAACGCACACAGGUGACAGCUACACUGGAAAAUAAAAGCAUUACCAUACUUGACUUUCAGUUGGGAUAUGAAUC----AUUCAUGUGCUAAACGCUAAAAGUUUCCAAAGUCCCAAAU
.............((.(((((.....))(((((.....(((.........((..((.....))..))((((((...----..)))))).......))).....)))))...))))).... ( -22.20)
>DroSec_CAF1 20242 106 + 1
CAAAACGCACACAGGUGACAGCUACACUGGAAAUUAAAAGCGUUAC----------AUCCAUUUAGCAUAUGAAUC----AUUCAUGUGCUAAACGCUAAAAGUUUCCAAAGUCCCAAAU
.............((.(((((.....))(((((((...((((((..----------.......((((((((((...----..))))))))))))))))...)))))))...))))).... ( -29.30)
>DroSim_CAF1 22330 106 + 1
CAAAACGCACACAGGUGACAGCUACACUGGAAAUUAAAAGCGUUAC----------AUUCAGUUAGCCUAUGAAUC----AUUCAUGUGCUAAACGCUAAAAGUUUCCAAAGUCCCAAAU
.............((.(((((.....))(((((((...((((((((----------.....))((((.(((((...----..))))).))))))))))...)))))))...))))).... ( -24.80)
>DroEre_CAF1 21047 94 + 1
CAAAACGCACACAGGUGACAGCUACACUGGCAAACAA-AGCUAUAC-----UUUA-U--------------CAACU----AUGUGUAUGCUAAAUGCUAAAG-UUUCCGAGGUCUCAAAU
......(((....(....)(((((((((((.....((-((.....)-----))).-.--------------...))----).))))).)))...))).....-................. ( -14.10)
>DroYak_CAF1 21743 114 + 1
CAAAACGCACACAGGUGACAGCCACACUGAAAAACAAAAGCUAUAC-----UUUA-UUUCGGUUAGUAUAUGAACUAUCAAUGUAUAUGCUAAACGCUAAAACUCUUCGAAUUCUCAAAU
......((.....(((....)))..(((((((....((((.....)-----))).-)))))))(((((((((...........)))))))))...))....................... ( -14.90)
>consensus
CAAAACGCACACAGGUGACAGCUACACUGGAAAAUAAAAGCGUUAC_____UU_A_UUUCAGUUAGCAUAUGAAUC____AUUCAUGUGCUAAACGCUAAAAGUUUCCAAAGUCCCAAAU
......((...((((((.....))).))).................................(((((((((((((.....)))))))))))))..))....................... (-10.80 = -13.40 +   2.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:55 2006