Locus 2020

Sequence ID 2L_DroMel_CAF1
Location 5,473,433 – 5,473,550
Length 117
Max. P 0.544378
window3251

overview

Window 1

Location 5,473,433 – 5,473,550
Length 117
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.15
Mean single sequence MFE -19.56
Consensus MFE -12.37
Energy contribution -13.18
Covariance contribution 0.81
Combinations/Pair 1.17
Mean z-score -1.44
Structure conservation index 0.63
SVM decision value 0.02
SVM RNA-class probability 0.544378
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5473433 117 + 22407834
AAAAGAAAC---AGCCGAAACGGGAAAUUGUUGCUGCCUGUUUUUUAUGGGCACAAACAAUAGUAAAAUAAAAUUUAAGGCGGCAGGCGACAAAGUAAACACCAUAAUAAAUACGCGUUU
.....((((---.(((..(((((....)))))(((((((...((((((..((..........))...))))))....))))))).)))......(((..............)))..)))) ( -23.04)
>DroPse_CAF1 110130 96 + 1
----------------AAAACCAGAAAUCGGUGCUGCAUUUU-UUUAUGACUACAAACAAUAAUAAAAUGAAAUUUAAGGCAGCAGGCGACAAAGUAAACACAAUAAUAAAUG-------
----------------...........(((.((((((....(-(((((...................))))))......))))))..))).......................------- ( -12.21)
>DroEre_CAF1 93810 116 + 1
AAAAGAAAC---AACCGAAACGGGAAAUUGUUGCUGCCCGUUUUUUAUGGGCACAAACAAUAGUAAAAUAAAAUUUAAGGCGGCAGGCGACAAAGUAAACACCAUAAUAAAUACG-AUUU
.........---..(((...)))...((((((..(((((((.....)))))))..)))))).................((.(....((......))...).))............-.... ( -20.90)
>DroYak_CAF1 101048 120 + 1
AAAAGAAACAACAACCGAAACGGGAAAUUGUUGCUGCCCGUUUUUUAUGGGCACAAACAAUAGUAAAAUAAAAUUUAAGGCGGCAGGCGACAAAGUAAACACCAUAAUAAAUACGGAUUU
..............(((.........((((((..(((((((.....)))))))..)))))).................((.(....((......))...).))..........))).... ( -23.40)
>DroAna_CAF1 100604 117 + 1
AAAACAAAC---AUCUGAAACGAGAAAUUGUUGCUGCCUUUUUUUUUAUGCCACAAACAAUAGUAAAAUGAAAUUUAAGGCGGCAGGCGACAAAGUAAACACCAUAAUAAAUACGGAGUU
......(((---.((((.(((((....)))))((((((((...((((((...((........))...))))))...)))))))).............................))))))) ( -25.20)
>DroPer_CAF1 110855 97 + 1
----------------AAAACCAGAAAUCGGUGCUGCAUUUUUUUUAUGACUACAAACAAUAAUAAAAUGAAAUUUAAGGCAGCAGGCGACAAAGUAAACACAAUAAUAAAUG-------
----------------...........(((.((((((.....((((((...................))))))......))))))..))).......................------- ( -12.61)
>consensus
AAAAGAAAC___A_CCGAAACGAGAAAUUGUUGCUGCCUGUUUUUUAUGGCCACAAACAAUAGUAAAAUAAAAUUUAAGGCGGCAGGCGACAAAGUAAACACCAUAAUAAAUACG_AUUU
...........................((((((((((((...((((((...................))))))....)))))))).)))).............................. (-12.37 = -13.18 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:17 2006