Locus 8340

Sequence ID X_DroMel_CAF1
Location 20,689,377 – 20,689,482
Length 105
Max. P 0.500000
window13700

overview

Window 0

Location 20,689,377 – 20,689,482
Length 105
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 80.30
Mean single sequence MFE -23.90
Consensus MFE -16.99
Energy contribution -16.93
Covariance contribution -0.06
Combinations/Pair 1.12
Mean z-score -1.50
Structure conservation index 0.71
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20689377 105 + 22224390
UCCGAGUCUUUUGAGUUU----------CGGGUCC-----UUCGGGCUUGUAGCACAUUUCCCACAUUUUCCUACAUUUAACCACAAUAUUUUUGUGGAAUUGCUCGCAAAUUGUUUAUA
..(((((....((.(((.----------((((.((-----....)))))).))).))........................((((((.....))))))....)))))............. ( -23.10)
>DroEre_CAF1 84917 105 + 1
UCCGAGUCUUUUGAGUUU----------CGGGUCC-----UUUGGGCUUGCAGCACAUUUCCUACAUUUUCCUACACUUAACCACAAUAUUUUUGUGGAAUUGCUCGCAAAUUGUUUAUA
..(((((....((.(((.----------(((((((-----...))))))).))).))........................((((((.....))))))....)))))............. ( -22.60)
>DroYak_CAF1 86357 105 + 1
UCCGAGUCUUUUGAGUUU----------CGGGUCC-----UUUGGGCUUCUAGCACAUUUCCUACAUUUUCCUACAUUUAACCACAAUAUUUUUGUGGAAUUGCUCGCAAAUUGUUUAUU
..(((((....((.(((.----------.((((((-----...))))))..))).))........................((((((.....))))))....)))))............. ( -20.40)
>DroAna_CAF1 60901 110 + 1
UCUGUGUCUUUUGAGUUUUUUGGGGGACCGGGCCGAGUGGCCCCGGCUUGUGGCACAUUUUC----------UACAUUUGACCACAAUAUUUUUGGGGAAUUGCUCUCAAAUUGUUUACU
..((((((...((((((....((....))(((((....))))).)))))).)))))).....----------...........(((((....((((((......)))))))))))..... ( -29.50)
>consensus
UCCGAGUCUUUUGAGUUU__________CGGGUCC_____UUCGGGCUUGUAGCACAUUUCCUACAUUUUCCUACAUUUAACCACAAUAUUUUUGUGGAAUUGCUCGCAAAUUGUUUAUA
............((((............(((((((........)))))))...............................((((((.....))))))....)))).............. (-16.99 = -16.93 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:01:36 2006