Locus 3270

Sequence ID X_DroMel_CAF1
Location 8,682,434 – 8,682,542
Length 108
Max. P 0.609280
window5362

overview

Window 2

Location 8,682,434 – 8,682,542
Length 108
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 91.29
Mean single sequence MFE -31.78
Consensus MFE -25.44
Energy contribution -25.08
Covariance contribution -0.36
Combinations/Pair 1.20
Mean z-score -1.44
Structure conservation index 0.80
SVM decision value 0.15
SVM RNA-class probability 0.609280
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8682434 108 - 22224390
CGUUUUGCGGAGAUUCCACUGUUUUUUUUUUUGUGGGGCCAUUUGUGCGUUUCAAGUGAGGCUUCGCAAACGAAUGCCGGAAGUUGCCUUUCGAAUGCAAAAUGCAAA
((((((((((.....))...((...(((.((((((((((((((((.......)))))..))))))))))).))).))((((((....))))))...)))))))).... ( -31.90)
>DroSec_CAF1 118806 106 - 1
CGUUUUGCGAUGAUUCCACUGU-U-UUUUUUUGUGAGGCCAUUUGUGCGUUUCAAGUGAGGCUCCGCAAACGAAUGCCGGAAGUUGCCUUUCGAAUGCAAAAUGCAAA
(((((((((...........((-.-(((.((((((..((((((((.......)))))..)))..)))))).))).))((((((....))))))..))))))))).... ( -29.30)
>DroSim_CAF1 83532 106 - 1
CGUUUU-CGGAAAUUCUACUGUAU-UUUUUUUGUGAGGCCAUUUGUGCGUUUCAAGUGAGGCUCCGCAAACGAAUGCCGGAAGUUGCCUUUCGAAUGCAAAAUGCAAA
.((.((-(((((...((.((((((-((..((((((..((((((((.......)))))..)))..)))))).))))).))).)).....))))))).)).......... ( -26.10)
>DroEre_CAF1 130723 103 - 1
CGUCUUGCGGAGACUCCACUGU-----UUUUUGUGAGGCCAUUUGUGCGUUUCAAGUGAGGCUCCGCAAGCGAAUGCCGGAAGUUGCCUUUCGAAUGCAAAAUGCAAA
((.(((((((((.(..((((..-----......((((((((....)).))))))))))..)))))))))))).....((((((....))))))..(((.....))).. ( -35.70)
>DroYak_CAF1 122430 103 - 1
UGUCAUGAGGAGGUUCCACUGU-----UCUUUGUGGGGCCAUUUGUGCGUUUCAAGUGAGGCUCCGCAAACGAAUGCCGGAAGUUGCCUUUCGAAUGCAAAAUGCAAA
..((..((((((.((((..(((-----((((((((((((((((((.......)))))..))))))))))).)))))..)))).)).))))..)).(((.....))).. ( -35.90)
>consensus
CGUUUUGCGGAGAUUCCACUGU_U_UUUUUUUGUGAGGCCAUUUGUGCGUUUCAAGUGAGGCUCCGCAAACGAAUGCCGGAAGUUGCCUUUCGAAUGCAAAAUGCAAA
.((((((((((((..............))))))))))))(((((.(((((((.....(((((((((((......)).))))....)))))..)))))))))))).... (-25.44 = -25.08 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:19 2006