Locus 4091

Sequence ID	2L_DroMel_CAF1
Location	11,779,109 – 11,779,247
Length	138
Max. P	0.979640

overview

Window 6

Location	11,779,109 – 11,779,214
Length	105
Sequences	5
Columns	105
Reading direction	reverse
Mean pairwise identity	95.98
Mean single sequence MFE	-39.25
Consensus MFE	-31.02
Energy contribution	-31.62
Covariance contribution	0.60
Combinations/Pair	1.09
Mean z-score	-1.98
Structure conservation index	0.79
SVM decision value	0.52
SVM RNA-class probability	0.767994
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11779109 105 - 22407834
GCAAAAAGUGGUGCCAACAAAGUUUCCAGCCCAUCGGGACUUGGGUACAUCUCUAGACCGGCUUUUGGUGGGUGGGAAGCACUCGAGUGUUGGCUGGCUAACUGG
......(((.(.((((((...((((((.(((((((((((.((((.............)))).))))))))))).))))))((....))))))))).)))...... ( -39.02)
>DroSec_CAF1 37041 104 - 1
GCAAAAAGUGCUGCCAACAAAGUUUCCAGCCCAUCGGGACUUGGGUACAUCUCUAGACCGGCUUUCGGUGGGUG-GAAGCACUCGAGUGUUGGCUGGCUAACUGG
......((((((((((((...(((((((.(((((((..(.((((.............)))).)..)))))))))-)))))((....)))))))).)))..))).. ( -41.12)
>DroSim_CAF1 36154 104 - 1
GCAAAAAGUGCUGCCAACAAAGUUUCCAGCCCAUCGGGACUUGGGUACAUCUCUAGACCGGCUUUCGGUGGGUG-GAAGCACUCGAGUGUUGGCUGGCUAACUGG
......((((((((((((...(((((((.(((((((..(.((((.............)))).)..)))))))))-)))))((....)))))))).)))..))).. ( -41.12)
>DroEre_CAF1 47408 104 - 1
GCAAAAAGUGCUGCCAACAAAGUUUCAAGCCCAUCGGGACUUGGGUACAUCUCUAGACCGACUUCGGGUGGGAG-GAACCACUCGAGUGUUGGCUGGCUAACUGG
......(((...(((......(((((((((((...))).)))))).))......((.((((((((((((((...-...))))))))).))))))))))..))).. ( -38.80)
>DroYak_CAF1 38613 104 - 1
GCAAAAAGUGCUGCCAACAAAGUUUCAAGCCCAUCGGGACUUGGGUACAUCUCUAGACCGGCUUUGGGUGGGAG-GAACCACUCGAGUGUUGGCUGGCUAACUGG
......(((...(((......(((((((((((...))).)))))).))......((.((((((((((((((...-...))))))))).))))))))))..))).. ( -36.20)
>consensus
GCAAAAAGUGCUGCCAACAAAGUUUCCAGCCCAUCGGGACUUGGGUACAUCUCUAGACCGGCUUUCGGUGGGUG_GAAGCACUCGAGUGUUGGCUGGCUAACUGG
......((((((((((((...(((((...((((((((((.((((.............)))).))))))))))...)))))((....)))))))).)))..))).. (-31.02 = -31.62 +   0.60)

alignment

secondary structure

dotplot

Window 7

Location	11,779,141 – 11,779,247
Length	106
Sequences	5
Columns	113
Reading direction	reverse
Mean pairwise identity	91.73
Mean single sequence MFE	-36.66
Consensus MFE	-31.94
Energy contribution	-32.18
Covariance contribution	0.24
Combinations/Pair	1.11
Mean z-score	-1.83
Structure conservation index	0.87
SVM decision value	1.84
SVM RNA-class probability	0.979640
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11779141 106 - 22407834
CGCAUGCCCCCUGACACCAGCUGGCUAA-------AAGCAGCAAAAAGUGGUGCCAACAAAGUUUCCAGCCCAUCGGGACUUGGGUACAUCUCUAGACCGGCUUUUGGUGGGU
.....((((((.((....(((((((((.-------..(((.((.....)).))).......((.((((((((...))).).)))).)).....))).)))))))).)).)))) ( -30.70)
>DroSec_CAF1 37072 106 - 1
CACAUGCCCCCUGACACCAGCUGGCUAA-------AAGCAGCAAAAAGUGCUGCCAACAAAGUUUCCAGCCCAUCGGGACUUGGGUACAUCUCUAGACCGGCUUUCGGUGGGU
.....((((.((((....(((((((((.-------..((((((.....)))))).......((.((((((((...))).).)))).)).....))).)))))).)))).)))) ( -37.50)
>DroSim_CAF1 36185 106 - 1
CACAUGCCCCCUGACACCAGCUGGCUAA-------AAGCAGCAAAAAGUGCUGCCAACAAAGUUUCCAGCCCAUCGGGACUUGGGUACAUCUCUAGACCGGCUUUCGGUGGGU
.....((((.((((....(((((((((.-------..((((((.....)))))).......((.((((((((...))).).)))).)).....))).)))))).)))).)))) ( -37.50)
>DroEre_CAF1 47439 106 - 1
CGCACGCCCCCUGACACCAGUUGGCUAA-------AAGCAGCAAAAAGUGCUGCCAACAAAGUUUCAAGCCCAUCGGGACUUGGGUACAUCUCUAGACCGACUUCGGGUGGGA
......((((((((....(((((((((.-------..((((((.....)))))).......(((((((((((...))).)))))).)).....))).))))))))))).))). ( -39.10)
>DroYak_CAF1 38644 113 - 1
CGCAUGCCCUCCGACAGCAGCUGGCUAACAGCUAACAGCAGCAAAAAGUGCUGCCAACAAAGUUUCAAGCCCAUCGGGACUUGGGUACAUCUCUAGACCGGCUUUGGGUGGGA
......(((.((......(((((.....)))))....((((((.....))))))...(((((((.(((((((...))).))))(((.(.......))))))))))))).))). ( -38.50)
>consensus
CGCAUGCCCCCUGACACCAGCUGGCUAA_______AAGCAGCAAAAAGUGCUGCCAACAAAGUUUCCAGCCCAUCGGGACUUGGGUACAUCUCUAGACCGGCUUUCGGUGGGU
......(((.((((....(((((((((..........((((((.....))))))..............(((((........))))).......))).)))))).)))).))). (-31.94 = -32.18 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:07 2006