Locus 3609

Sequence ID 3R_DroMel_CAF1
Location 9,739,961 – 9,740,063
Length 102
Max. P 0.857129
window5817

overview

Window 7

Location 9,739,961 – 9,740,063
Length 102
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.20
Mean single sequence MFE -18.93
Consensus MFE -10.95
Energy contribution -11.12
Covariance contribution 0.17
Combinations/Pair 1.09
Mean z-score -2.66
Structure conservation index 0.58
SVM decision value 0.81
SVM RNA-class probability 0.857129
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9739961 102 + 27905053
-------------CACUC-CAAUCGA----AGUAUUAACGGGCAUUACAAUAAGUAUGAAAUUAAUAUUAAUUUCAAUUAAUGUCAAAUAUUAAUGUCCACAAAAGCGUCGAACAUCAUU
-------------.....-...((((----.((......((((((((((.(((...((((((((....)))))))).))).)))........)))))))......)).))))........ ( -17.60)
>DroVir_CAF1 51602 101 + 1
-------------CAUUC-ACAUU-G----ACCAUUAACUGGCAUUACAAUAAAUAUGAAAUUAAUAUUAAUUUCAAUUAAUGUCAAACAUUAAUGUCCACAAAAGCGUCGGGCAUCAUU
-------------.....-...((-(----((.(((((.((......)).......((((((((....)))))))).))))))))))......((((((((......)).)))))).... ( -17.80)
>DroGri_CAF1 51537 101 + 1
-------------CAUCC-ACAUU-A----GCCAUUAACUGGCAUUACAAUAAAUAUGAAAUUAAUAUUAAUUUCAAUUAAUGUCAAACAUUAAUGUCCACAAAAGCGUCGGGCAUCAUU
-------------.....-(((((-(----((((.....)))).............((((((((....))))))))..)))))).........((((((((......)).)))))).... ( -20.70)
>DroWil_CAF1 50056 107 + 1
GGGUUAACCCUAACACCC-UCAUCAA----GGUGAUAA-------UAC-AUAAAUAUGAAAUUAAUAUUAAUUUCAAUUAAUGUCAAAUAUUAAUGUCCACAAAAGCGUUGGACAUCAUU
(((....)))...((((.-.......----))))....-------.((-((.(((.((((((((....))))))))))).)))).........((((((((......).))))))).... ( -23.20)
>DroMoj_CAF1 55291 101 + 1
-------------CAUCC-ACGUU-G----GCCAUUAACCGGCAUUACAAUAAAUAUGAAAUUAAUAUUCAUUUCAAUUAAUGUCAAACAUUUAUGUCCACAAAAGCGUUGGGCAUCAUU
-------------.....-(((((-(----(((.......))).............((((((........))))))..)))))).........((((((((......).))))))).... ( -16.10)
>DroPer_CAF1 62051 107 + 1
-------------UACUCGCACUCGAGCUCCGCAUUAACGGGCAUUACAAUAAAUAUGAAAUUAAUAUUAAUUUCAAUUAAUGUCAAAUAUUAAUGUCCACAAAAGCGUCGAACAUCAUU
-------------..((((....))))(..(((......((((.............((((((((....))))))))((((((((...))))))))))))......)))..)......... ( -18.20)
>consensus
_____________CACCC_ACAUC_A____GCCAUUAACGGGCAUUACAAUAAAUAUGAAAUUAAUAUUAAUUUCAAUUAAUGUCAAACAUUAAUGUCCACAAAAGCGUCGGACAUCAUU
........................................................((((((((....))))))))((((((((...))))))))((((((......)).))))...... (-10.95 = -11.12 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:44 2006