Locus 1779

Sequence ID X_DroMel_CAF1
Location 4,899,992 – 4,900,098
Length 106
Max. P 0.930717
window2907

overview

Window 7

Location 4,899,992 – 4,900,098
Length 106
Sequences 4
Columns 116
Reading direction reverse
Mean pairwise identity 84.90
Mean single sequence MFE -26.88
Consensus MFE -22.64
Energy contribution -22.45
Covariance contribution -0.19
Combinations/Pair 1.05
Mean z-score -2.06
Structure conservation index 0.84
SVM decision value 1.21
SVM RNA-class probability 0.930717
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4899992 106 - 22224390
---------AACCCGGAGAGAUUUGCAUAAAUUGUAAAUUUUUGUGUGUCGAUUUUAAUGGCUGCAAAGUGUGGUCACCGUAUUUUGCAUUUUCGGG-GAAAGGAAGGAAAAUUAU
---------..(((((((((((..(((((((.........))))))))))............((((((((((((...))))))))))))))))))))-.................. ( -27.20)
>DroSec_CAF1 50897 99 - 1
-----------CCCGGAGAGAUUUGCAUAAAUUGUAAAUU--UGUGUGUCGAUUUUAAUGGCUGCAAAGUGUGGUCAUCGUAUUUUUGAUUUUCGGG-GAAA---AGGAAAUUUAU
-----------((((((((((((((((.....))))))))--)....(((((.....(((((..(.....)..))))).......))))))))))))-....---........... ( -25.80)
>DroEre_CAF1 54004 99 - 1
---------UACCCGGAGAGAUUUGCAUAAAUUGUAAAUU--UGUGUGUCGAUUUUAAUGGCUGCAAAGUGUGGUCACCGUAUUUCGCAUUUUCGGG-GAAG---UGGAAAUUA--
---------..((((((((((((((((.....))))))))--)..(((.(((......((((..(.....)..)))).......)))))))))))))-....---.........-- ( -27.02)
>DroYak_CAF1 51950 109 - 1
UUUAUUUUGUACCCGGAGAAAUUUGCAUAAAUUGUAAAUU--UGUGUGUCGAUUUUAAUGGCUGCAAAGUGUGGUCACCGUAUUUCGCAUUUUCGGGGGAAA---UCUAAAAUA--
((((..((...((((((((((((((((.....))))))))--)..(((.(((......((((..(.....)..)))).......)))))))))))))...))---..))))...-- ( -27.52)
>consensus
_________UACCCGGAGAGAUUUGCAUAAAUUGUAAAUU__UGUGUGUCGAUUUUAAUGGCUGCAAAGUGUGGUCACCGUAUUUCGCAUUUUCGGG_GAAA___AGGAAAAUA__
...........((((((((((((((((.....))))))))..................((((..(.....)..))))............))))))))................... (-22.64 = -22.45 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:41 2006