Locus 6117

Sequence ID 3L_DroMel_CAF1
Location 16,213,629 – 16,213,745
Length 116
Max. P 0.858863
window9828

overview

Window 8

Location 16,213,629 – 16,213,745
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.77
Mean single sequence MFE -30.51
Consensus MFE -24.08
Energy contribution -23.64
Covariance contribution -0.44
Combinations/Pair 1.10
Mean z-score -1.94
Structure conservation index 0.79
SVM decision value 0.82
SVM RNA-class probability 0.858863
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16213629 116 - 23771897
UAUUUUCUCAGCCCAGAGCAAGCCACAUCAGAAAUUGGCAUGCUCACUAGCC----GGAUGGCUAAAAAUAUCCUUUGACCUAAUUCUCGUUGACAGUCGACAAAUGUGGGGGCAUUAAA
..........((((.(((((.((((..........)))).))))).....((----(((((........)))))...............((((.....))))......))))))...... ( -32.20)
>DroSec_CAF1 32381 116 - 1
UAUUUUCUCAGCCCAGAGCAAGCCACAUCAGAAAUUGGCAUGCUCACUAGCC----GGAUGGCUAAAAAUAUCCUUUGACCUAAUUCUCGUUGACAGUCGACAAAUGUGGGGGCAUUAAA
..........((((.(((((.((((..........)))).))))).....((----(((((........)))))...............((((.....))))......))))))...... ( -32.20)
>DroSim_CAF1 34223 116 - 1
UAUUUUCUCAGCCCAGAGCAAGCCACAUCAGAAAUUGGCAUGCUCACUAGCC----GGAUGGCUAAAAAUAUCCUUUGACCUAAUUCUCGUUGACAGUCGACAAAUGUGGGGGCAUUAAA
..........((((.(((((.((((..........)))).))))).....((----(((((........)))))...............((((.....))))......))))))...... ( -32.20)
>DroEre_CAF1 31874 115 - 1
UAUUUUCUCAGCCCAGA-----CCACAUCAGAAAUUGGCAUGCCCACUAGUCACUAGGAUAGCUAAAAAUAUCCUUUGACCUAAUUCUCGUUGACAGUCGACAAAUGAGGGGGCAUUAAA
..........(((....-----..............)))((((((....((((..((((((........)))))).)))).....(((((((...........))))))))))))).... ( -28.07)
>DroYak_CAF1 68941 110 - 1
UAUUUUCUCAGCCCAGA-----CCACAUCGGAAAUUGGCAUGC-CACUAGUC----GGAUAGCUAAAAAUAUCCUUUGACCUAAUUCUCGUUGACAGUCGACAAAUGUGGGGGCAUUAAA
..........((((...-----((((((.((((..(((....)-))...(((----(((((........)))))...)))....)))).((((.....))))..))))))))))...... ( -27.90)
>consensus
UAUUUUCUCAGCCCAGAGCAAGCCACAUCAGAAAUUGGCAUGCUCACUAGCC____GGAUGGCUAAAAAUAUCCUUUGACCUAAUUCUCGUUGACAGUCGACAAAUGUGGGGGCAUUAAA
..........((((........((((((.((((...((((.((......)).....(((((........)))))..)).))...)))).((((.....))))..))))))))))...... (-24.08 = -23.64 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:30 2006