Locus 1520

Sequence ID X_DroMel_CAF1
Location 4,437,118 – 4,437,222
Length 104
Max. P 0.569104
window2466

overview

Window 6

Location 4,437,118 – 4,437,222
Length 104
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 77.75
Mean single sequence MFE -25.24
Consensus MFE -17.98
Energy contribution -18.94
Covariance contribution 0.96
Combinations/Pair 1.10
Mean z-score -1.36
Structure conservation index 0.71
SVM decision value 0.07
SVM RNA-class probability 0.569104
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4437118 104 - 22224390
GCCA-----ACAGACUGAUAGCUGCUAUCAGGCAAGAACUCUUCGAUUAGCUACAGUGGUCA-----------CUGACUACAAAGCUGAUGAGUAUGCAUUUAAUUGUAUGUAUACAAAU
....-----.....(((((((...)))))))...........((.(((((((...((((((.-----------..))))))..)))))))))((((((((........)))))))).... ( -29.00)
>DroSec_CAF1 38965 95 - 1
GCCA-----ACAGACUGAUAGCUGCUAUCAGGCAAGAACUCUUCGAUUAGCUACAGUGCUCA-----------CUGACUACAAAGCUAAUGAGUAUGCAUUUAAUUGUAGG---------
.((.-----((((.(((((((...)))))))(((...((((....(((((((.((((....)-----------))).......))))))))))).)))......)))).))--------- ( -23.10)
>DroSim_CAF1 40397 95 - 1
GCCA-----ACAGACUGAUAGCUGCUAUCAGGCAAGAACUCUUCGAUUAGCUACAGUGGCCA-----------CUGACUACAAAACUAAUGAGUAUGCAUUUAGUUGUAGG---------
(((.-----....((((.((((((((....)))(((....))).....))))))))))))..-----------....((((((....((((......))))...)))))).--------- ( -22.10)
>DroEre_CAF1 40584 120 - 1
GCCAGACUGAUAGACUGAUAGCUGCUAUCAGCGAAGAACUCUUCGAUUAGCUACAGUGGUCACCACACAGCAACUGACUACAGAGCUAAUGAGUAUUUGUUUAAUUGUAGAUCAAUUUAU
...((((.((((..(((((((...)))))))(((((....)))))(((((((...(((((((............)))))))..)))))))...)))).))))(((((.....)))))... ( -30.40)
>DroYak_CAF1 39596 115 - 1
GCCA-----ACAGACUGAUAGCUGCUAUCAACCAGGAACUCUUCGAUUAGCUACAGUUGUCACUACACUGCAACUGACUAUAGAGCUUAUGAGUAUUCGUUGCAUUGCAUAUCAAUAAAU
((((-----((..(((.((((((((((....(.(((....))).)..))))..((((((.((......)))))))).......))).))).)))....))))....))............ ( -21.60)
>consensus
GCCA_____ACAGACUGAUAGCUGCUAUCAGGCAAGAACUCUUCGAUUAGCUACAGUGGUCA___________CUGACUACAAAGCUAAUGAGUAUGCAUUUAAUUGUAGGU__A___AU
.........((((.(((((((...)))))))......((((....(((((((...(((((((............)))))))..)))))))))))..........))))............ (-17.98 = -18.94 +   0.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:01 2006