Locus 4204

Sequence ID X_DroMel_CAF1
Location 11,025,741 – 11,025,844
Length 103
Max. P 0.750276
window6909

overview

Window 9

Location 11,025,741 – 11,025,844
Length 103
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.29
Mean single sequence MFE -41.00
Consensus MFE -33.94
Energy contribution -34.34
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.51
Structure conservation index 0.83
SVM decision value 0.47
SVM RNA-class probability 0.750276
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11025741 103 + 22224390
GAUCCUGCCACCAUUU-CCCGCUUUUAAUGACGCAGUGGCAAACACUCGGAAGGCGUCGACCCACUUGGCACAA-AGGGGGCGUGGUGAGUGGUGA---------------UAUGUAUGG
...((((((((((((.-.((((......((((((((((.....))))(....))))))).(((.(((......)-)))))..))))..))))))).---------------...))).)) ( -38.80)
>DroSec_CAF1 18258 103 + 1
GAUCCUGCCACCAUUU-CCCGCUUUUAAUGACGCAGUGGCAAACACUCGGAAGGCGUCGACCCACUUGGCACAA-AGGGGGCGUGGUGAGUGCUGA---------------UAUGUAUGG
........((((((.(-(((.((((...((((((((((.....))))(....)))))))..((....))...))-)))))).)))))).((((...---------------...)))).. ( -33.40)
>DroSim_CAF1 10041 103 + 1
GAUCCUGCCACCAUUU-CCCGCUUUUAAUGACGCAGUGGCAAACACUCGGAAGGCGUCGACCCACUUGGCACAA-AGGGGGCGUGGUGAGUGCUGA---------------UAUGUAUGG
........((((((.(-(((.((((...((((((((((.....))))(....)))))))..((....))...))-)))))).)))))).((((...---------------...)))).. ( -33.40)
>DroEre_CAF1 12745 111 + 1
GAUCCUGCCACCAUUU-CCCGCUUUUAAUGACGCAGUGGCAAACACUCGGAAGGCGUCGACCCACUUGGCACAA-AGGGGGCGUGGUGAGUGGUGG-------GCCUUCCACAUGUAUGG
.......((((((((.-.((((......((((((((((.....))))(....))))))).(((.(((......)-)))))..))))..))))))))-------.....(((......))) ( -42.20)
>DroYak_CAF1 14178 120 + 1
GAUCCUGCCACCAUUUGCCCGCUUUUAAUGACGCAGUGGCAAACACUCGGAAGGCGUCGACCCACUUGGCACAAAAGGGGGCGUGGUGAGUGGUGGCUCGCACGCGUUCCAUAUGUGUGU
......(((((((((..(((((......((((((((((.....))))(....))))))).(((.(((.......))))))))).))..)))))))))..((((((((.....)))))))) ( -57.20)
>consensus
GAUCCUGCCACCAUUU_CCCGCUUUUAAUGACGCAGUGGCAAACACUCGGAAGGCGUCGACCCACUUGGCACAA_AGGGGGCGUGGUGAGUGGUGA_______________UAUGUAUGG
........((((((((.(((((......((((((((((.....))))(....))))))).(((..(((...)))...)))))).)).))))))))......................... (-33.94 = -34.34 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:05 2006