Locus 1170

Sequence ID X_DroMel_CAF1
Location 3,488,593 – 3,488,709
Length 116
Max. P 0.887701
window1876

overview

Window 6

Location 3,488,593 – 3,488,709
Length 116
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 74.45
Mean single sequence MFE -27.02
Consensus MFE -12.22
Energy contribution -12.42
Covariance contribution 0.20
Combinations/Pair 1.12
Mean z-score -2.01
Structure conservation index 0.45
SVM decision value 0.95
SVM RNA-class probability 0.887701
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3488593 116 + 22224390
AAGAUAUUAAUUACCUUAAUAUUACUCUUUAAGGAACUGCAGCAUUAAUUUUGACUUACGCUGCU-CUUAUAAUUUUGUUCACAGUGUAGUAAUUGCAUUGCGCUGCGAUUAUUGCA
..((....(((((((((((.........))))))....(((((................))))).-....)))))....))....(((((((((((((......))))))))))))) ( -27.09)
>DroSec_CAF1 49158 110 + 1
AAAAUA------AUGUUAAUAUCACUCUUUAAGGAACUACAGAAUUAAUUUUGACUCACUCUGGU-CGUAUAGUUUUGUUCUCAGUGUAGUAAUUGCAUUGCGCUGCGAUUAUUGCA
......------.....................((...(((((((((....(((((......)))-))..)))))))))..))..(((((((((((((......))))))))))))) ( -24.20)
>DroSim_CAF1 43580 108 + 1
--AGCA------AUGUUAAUAUCACUUUUUAAGGAACUACAGAAUUAAUUUUGACUCACGCUGGU-CGUAUAGUUUUGUUCUCAGUGUAGUAAUUGCAUUGCGCUGCGAUUAUUGCA
--.(((------(((.......................(((((((((....(((((......)))-))..)))))))))((.(((((((((......))))))))).)).)))))). ( -26.50)
>DroEre_CAF1 52152 109 + 1
AAGAAA------AUAUUA-CAUUGGGUCUUAAGGAACUACACU-GUAGUUCAGAGUCUCGCUCGCUUGCCAAUUUUUGUUUUCAGUGCAGUAAUUGCAUUGUGUUGCGAUAAAUGCA
..((((------(((...-.(((((........(((((((...-))))))).(((.....))).....)))))...)))))))..((((...((((((......))))))...)))) ( -30.40)
>DroYak_CAF1 51048 109 + 1
CAGAAA------AUAUUAACCCUAGGCUUUGAGGAACUGCACU-GUAGUUUUCAGUCACGCUGAU-UUUCAAAUGUUGUUUUCAGUGUAGUAAUUGCAUUGUGUUGCGAUUAUUGGU
......------......(((...((((..(((.((((((...-)))))))))))))(((((((.-...((.....))...)))))))((((((((((......))))))))))))) ( -26.90)
>consensus
AAGAAA______AUAUUAAUAUUACUCUUUAAGGAACUACAGAAUUAAUUUUGACUCACGCUGGU_CGUAUAAUUUUGUUCUCAGUGUAGUAAUUGCAUUGCGCUGCGAUUAUUGCA
.................................((((........................................)))).....((((((((((((......)))))))))))). (-12.22 = -12.42 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:57 2006