Locus 1387

Sequence ID 3R_DroMel_CAF1
Location 4,052,555 – 4,052,659
Length 104
Max. P 0.709678
window2286

overview

Window 6

Location 4,052,555 – 4,052,659
Length 104
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 79.93
Mean single sequence MFE -27.42
Consensus MFE -18.38
Energy contribution -17.78
Covariance contribution -0.60
Combinations/Pair 1.30
Mean z-score -1.73
Structure conservation index 0.67
SVM decision value 0.37
SVM RNA-class probability 0.709678
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4052555 104 - 27905053
CCACUGCAUUGUUAUCUGCUAGCCUGUUCAUUAGCAGAGGGUAUCAUUAAAAAGUAGAGAAGAAAAUCUCAGCAUUUUCGGAGUAUUUUUCCAAUGCAG-CUA----------UC
...((((((((...((((((((........))))))))((((((..(.((((.((.((((......)))).)).)))).)..))))))...))))))))-...----------.. ( -27.10)
>DroSec_CAF1 56455 104 - 1
CCACUGCAUUGUUAUCUGCUAGCCUGUUCAUUAGCAGAGGGUAUCAUUAAAAAAUUGAGAGGAAAAUCUCAGCAUUUUCGGAGUAUUUUUCCAACGCAG-CUA----------UC
...((((..((((.((((((((........))))))))..................((((......)))))))).....((((.....))))...))))-...----------.. ( -24.50)
>DroSim_CAF1 55739 104 - 1
CCACUGCAUUGUUAUCUGCUAGCCUGUUCAUUAGCAGGGGGUAUCAUUAAAAAAUAGAGAGGAAAAUCUUAGCGUUUUCGAAGUAUUUUUCCAACGCAG-CUA----------UU
...((((.........((((..(((((......))))).)))).................((((((......((....))......))))))...))))-...----------.. ( -22.30)
>DroEre_CAF1 42388 105 - 1
CCACUGCAUUGUUAUCUGCUCGCCUGUUCAUUA-----GGGCAUCAU-AAAAAAUGGGG----AAUACUCGGCAUUUUCGGAGUAUUUCUCCAACGCAGGCUAUCGCUGACUGUG
.(((..((.((.(((((((..((((........-----)))).....-......(((((----(((((((.(......).))))))))).)))..))))).)).)).))...))) ( -30.60)
>DroYak_CAF1 59405 102 - 1
CCGCUGCAUUGUUAUCUGCUAGCCUGUUCAUUA-----GGGCAUCAU-AAAAAGCGGAG----AAAACUCGGCAUUUUCGGAGUAUUUCUCCAGCGCAGA-UAU--CCAGAUAUC
...(((......(((((((..((((........-----)))).....-.....((((((----(((((((.(......).)))).))))))).)))))))-)).--.)))..... ( -32.60)
>consensus
CCACUGCAUUGUUAUCUGCUAGCCUGUUCAUUAGCAG_GGGUAUCAUUAAAAAAUAGAGA_GAAAAUCUCAGCAUUUUCGGAGUAUUUUUCCAACGCAG_CUA__________UC
...((((.........((((.((((.............))))..............((((......)))))))).....((((.....))))...))))................ (-18.38 = -17.78 +  -0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:08:47 2006