Locus 2228

Sequence ID 2R_DroMel_CAF1
Location 8,216,771 – 8,216,876
Length 105
Max. P 0.693170
window3669

overview

Window 9

Location 8,216,771 – 8,216,876
Length 105
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.72
Mean single sequence MFE -34.80
Consensus MFE -26.19
Energy contribution -27.75
Covariance contribution 1.56
Combinations/Pair 1.09
Mean z-score -1.39
Structure conservation index 0.75
SVM decision value 0.33
SVM RNA-class probability 0.693170
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8216771 105 + 20766785
----CUCCAUUCCGUUUCCCCGUCCAGUGGCAAAGC---CA----CACAUAGCUCCACAUGGCCCAA---GUGGCCAGAUGG-GCGAGUGUCGUGGGCAAAGUCCCAUGAAAGCCGCUUA
----.....................((((((.....---..----(((...((.(((..(((((...---..)))))..)))-))..)))(((((((......)))))))..)))))).. ( -37.90)
>DroSec_CAF1 12004 104 + 1
----CUCCAUUCGGUUUCCCCUUCCAGUGGCAAAG----CA----CACAUAGCUCCACAUGGCCCAA---GUGGCCAGAUGG-GCGAGUGUCGUGGGCAAAGUCCCAUGAAAGCCGCUUA
----........((.........))((((((....----..----(((...((.(((..(((((...---..)))))..)))-))..)))(((((((......)))))))..)))))).. ( -38.30)
>DroSim_CAF1 13249 105 + 1
----CUCCAUUCCGUUUCCCCUUCCAGUGGCAGAG----CA----CACAUAGCUCCACAUGGCCCAA---GUGGCCAGAUGGGGCGAGUGUCGUGGGCAAAGUCCCAUGAAAGCCGCUUA
----.....................((((((....----..----(((...((((((..(((((...---..)))))..))))))..)))(((((((......)))))))..)))))).. ( -42.00)
>DroEre_CAF1 11704 116 + 1
CCAGCUCCAUUCCGUUUCCCCUUCCAGUGGCUAAACAGGCAAACGUACAUAGCUCCACAUGGCCCAA---GUGGCCAGAUGG-GCGAGAGUCGUGGGCAAAGUCCCAUGAAAGCCGCUUA
..(((........((((..((.......))..)))).(((...........((.(((..(((((...---..)))))..)))-)).....(((((((......)))))))..)))))).. ( -37.70)
>DroYak_CAF1 12273 110 + 1
--AGCUCCAAUCCGUUUCCCCUUCCAGUGGCCAAACAGACA----CACAUAGCUCCACAUGGCCCAA---GUGGCCAGAUGG-GCGAGAGUCGUGGGCAAAGUCCCAUGAAAGCCGCUUA
--.......................((((((..........----......((.(((..(((((...---..)))))..)))-)).....(((((((......)))))))..)))))).. ( -34.70)
>DroAna_CAF1 13463 99 + 1
----CUCCAUUCUACUUCCC-UUCUCGUUUCCGACUCG-CC----AGUAUAGCUCCAGAUGGGCCCAGAAAUGGCCA-----------AGUCAAAGGCACAGUUGCAUGAAAGCCGCUUA
----...............(-((.((((...(((((.(-((----((.....))...(((.((((.(....))))).-----------.)))...)))..))))).)))))))....... ( -18.20)
>consensus
____CUCCAUUCCGUUUCCCCUUCCAGUGGCAAAGC___CA____CACAUAGCUCCACAUGGCCCAA___GUGGCCAGAUGG_GCGAGAGUCGUGGGCAAAGUCCCAUGAAAGCCGCUUA
..........................(((((....................((.(((..(((((........)))))..))).)).....(((((((......)))))))..)))))... (-26.19 = -27.75 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:21 2006