Locus 5390

Sequence ID X_DroMel_CAF1
Location 14,011,477 – 14,011,568
Length 91
Max. P 0.849108
window8747

overview

Window 7

Location 14,011,477 – 14,011,568
Length 91
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 73.92
Mean single sequence MFE -37.27
Consensus MFE -19.31
Energy contribution -21.95
Covariance contribution 2.64
Combinations/Pair 1.20
Mean z-score -1.86
Structure conservation index 0.52
SVM decision value 0.78
SVM RNA-class probability 0.849108
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14011477 91 + 22224390
UCACAAGGAGGUGCCUUCGGGCCACAGGGAAUACCGGGCAAUGGU------UUCCUAGG------AGGUAACUUCCCGCCACAGGGAGGGCCCUUCCCAGGAU
......((((....))))..(((...((.....)).)))......------.((((.((------(((...((((((......))))))...))))).)))). ( -35.10)
>DroPse_CAF1 142757 88 + 1
GAGCAGGGAGGUCCAUUCCCAGGACUGGGA------GGU---CCA------UUCCCAGGGCAGGCAGGUCCUUUCCCAGGGCAGGGAGGUCCAUUCCCAGGAC
.....((((((.((..((((.(..((((((------(..---...------)))))))..)......(((((.....))))).)))))).))..))))..... ( -35.40)
>DroSec_CAF1 38166 90 + 1
CCACAGGGAGGUGCCUUCGGGCCACAGGGAAUACCGGGCAAUGGU------UUCCCAG-------AGGUAACUUCCCGCCACAGGGAGGGCCCUUCCCAGNNN
.....((((((.(((....)))....(((((.((((.....))))------)))))..-------.(((..((((((......)))))))))))))))..... ( -39.30)
>DroSim_CAF1 40163 91 + 1
CCACAGGGAGGUGCCUUCGGGCCACAGGGAAUACCGGGCAAUGGU------UUCCCAGG------AGGUAACUUCCCGCCACAGGGAGGCCCCUUCCCAGGAU
((...((((((.((((((.(((....(((((.((((.....))))------))))).((------(((...))))).)))....)))))).))))))..)).. ( -40.50)
>DroEre_CAF1 36105 88 + 1
CCACAGGGAGGUGCCUUCGGGCCACAGGGAAUAGCUGGU---------AACUUCCCAGG------AGGAAACUUCCCCCCACAGGGAGGACCCUUCCAAGGAU
((...((((((((((....)))..(((.......)))..---------.))))))).((------(((...((((((......))))))...)))))..)).. ( -37.20)
>DroYak_CAF1 38920 97 + 1
CCGCAGGCAGGUGCCUUUGGUCCACAGGGCAUACCUGGCAAUGGUGUCAACUAUCCAGG------AGCUAACUUCCCACAACAGGGAGGACCCUUCCCAGGAG
(((.((((....)))).)))(((..((((....(((((..(((((....))))))))))------......((((((......)))))).)))).....))). ( -36.10)
>consensus
CCACAGGGAGGUGCCUUCGGGCCACAGGGAAUACCGGGCAAUGGU______UUCCCAGG______AGGUAACUUCCCGCCACAGGGAGGACCCUUCCCAGGAU
.....((((((.(((....)))....(((((....................)))))...............((((((......))))))..))))))...... (-19.31 = -21.95 +   2.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:48 2006