Locus 5960

Sequence ID	2R_DroMel_CAF1
Location	18,777,711 – 18,777,803
Length	92
Max. P	0.997860

overview

Window 1

Location	18,777,711 – 18,777,803
Length	92
Sequences	5
Columns	92
Reading direction	reverse
Mean pairwise identity	90.71
Mean single sequence MFE	-19.18
Consensus MFE	-16.78
Energy contribution	-17.14
Covariance contribution	0.36
Combinations/Pair	1.06
Mean z-score	-2.31
Structure conservation index	0.87
SVM decision value	2.95
SVM RNA-class probability	0.997860
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18777711 92 - 20766785
CCAAUCAAAACCCAAAACCCACGAGGACCCAUUCACUGACCGCUGGCAGCUGCUAAAAGCGCUAGCGAGUAUUAAAAACUCGUUUCGACUAA
....................(((((((.....))....(((((((((.(((......)))))))))).))........)))))......... ( -21.70)
>DroSec_CAF1 140445 86 - 1
GCAAUC------CCUAACCCACGACGACCCACUCACUGACCGCUGGCAGCUGCUAAAAGGGCUAGCGAGUAUUAAAAACUCGUUUCGACUAA
......------............(((..(...........((((((..((......)).))))))((((.......)))))..)))..... ( -17.80)
>DroSim_CAF1 142749 86 - 1
CCAAUC------CCUAACCCACGACGACCCACUCACUGACCGCUGGCAGCUGCUAAAAGCGCUAGCAAGUAUUAAAAACUCGUUUCGACUAA
......------..........(((((.......(((....((((((.(((......))))))))).))).........)))))........ ( -16.29)
>DroEre_CAF1 141395 83 - 1
CCAAUC------CCUAACCCACGAC-C--CACUCACUGACCGCUGGCAGCUGCUAAAAGCGCCAGCGAGUAUUAAAAACUCGUUUCGACUAA
......------.........(((.-.--(...........((((((.(((......)))))))))((((.......)))))..)))..... ( -22.90)
>DroYak_CAF1 142942 85 - 1
CCAAUC------CCUAACCCACGAC-CCCCACUCACUGACCGCUGGCAGCUGCUAAAAGCGCCAACGAGUAUUAAAAACUCGUUUCGACUAA
......------.........(((.-..................(((.(((......))))))(((((((.......))))))))))..... ( -17.20)
>consensus
CCAAUC______CCUAACCCACGACGACCCACUCACUGACCGCUGGCAGCUGCUAAAAGCGCUAGCGAGUAUUAAAAACUCGUUUCGACUAA
.....................(((.................((((((.(((......)))))))))((((.......))))...)))..... (-16.78 = -17.14 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:04 2006