Locus 4068

Sequence ID 3L_DroMel_CAF1
Location 11,855,967 – 11,856,057
Length 90
Max. P 0.677688
window6335

overview

Window 5

Location 11,855,967 – 11,856,057
Length 90
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 79.93
Mean single sequence MFE -27.08
Consensus MFE -18.46
Energy contribution -19.22
Covariance contribution 0.75
Combinations/Pair 1.27
Mean z-score -1.43
Structure conservation index 0.68
SVM decision value 0.30
SVM RNA-class probability 0.677688
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11855967 90 + 23771897
UAACCCA-U-----UCCACAGCUCGUAUGCCAGCUGGAAAACGAGAUUCAUCGCACAAAUGUCCAAUGGAUGGAGGCGGAGCACAUUCGAAAGAAG
....((.-(-----(((....(((((...((....))...)))))((((((.(.((....)).).))))))))))..))......(((....))). ( -22.40)
>DroPse_CAF1 30712 95 + 1
UAACCUG-UGGGGAAUUACAGCUCGUCUGCCAGCUGGAGAACGAGAUACAUCGCACCAAUGUGCAGUGGAUGGAGGCGGAGCACAUCCGCAAGAAG
....(((-(((....))))))(((((((.((....)))).))))).....((((((....)))).(((((((...((...)).)))))))..)).. ( -30.20)
>DroGri_CAF1 39995 91 + 1
GAACGCAUU-----UCCAUAGCUUGUCUGUCAGCUGGAAAAUGAGAUCCAUCGCACCAAUGUGCAGUGGAUGGAGGCGGAGCAUAUACGCAAGAAA
...(((...-----(((.(((((........))))).........((((((.((((....)))).))))))))).)))..((......))...... ( -25.90)
>DroYak_CAF1 32991 90 + 1
UAACCUA-C-----UCCAUAGCUCGUCUGCCAGCUGGAAAACGAGAUCCACCGCACCAACGUGCAAUGGAUGGAAGCGGAGCACAUUCGCAAGAAG
.......-(-----(((....(((((...((....))...)))))(((((..((((....))))..)))))......))))....(((....))). ( -28.30)
>DroAna_CAF1 31957 76 + 1
--------------------GCUGGUGUGCCAGCUGGAGAACGAGAUCCAUCGCACCAAUGUCCAGUGGAUGGAGGCGGAACACAUUCGAAAGAAG
--------------------(((((....)))))((.....((...((((((.(((.........)))))))))..)).....))(((....))). ( -25.50)
>DroPer_CAF1 30814 95 + 1
UAACCUG-UGGGGAAUUACAGCUCGUCUGCCAGCUGGAGAACGAGAUACAUCGCACCAAUGUGCAGUGGAUGGAGGCGGAGCACAUCCGCAAGAAG
....(((-(((....))))))(((((((.((....)))).))))).....((((((....)))).(((((((...((...)).)))))))..)).. ( -30.20)
>consensus
UAACCUA_U_____UCCACAGCUCGUCUGCCAGCUGGAAAACGAGAUCCAUCGCACCAAUGUGCAGUGGAUGGAGGCGGAGCACAUUCGCAAGAAG
.....................(((((...((....))...)))))((((((.((((....)))).))))))....(((((.....)))))...... (-18.46 = -19.22 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:45 2006