Locus 1922

Sequence ID 3R_DroMel_CAF1
Location 5,442,689 – 5,442,780
Length 91
Max. P 0.952358
window3159

overview

Window 9

Location 5,442,689 – 5,442,780
Length 91
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 83.02
Mean single sequence MFE -16.82
Consensus MFE -15.10
Energy contribution -15.10
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.02
Structure conservation index 0.90
SVM decision value 1.42
SVM RNA-class probability 0.952358
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5442689 91 + 27905053
-----------------------AGAG-----AGAAGAAUUACGCAGGCAUAUAAAAAAUAUAUAAUUUGUAAAACAAAAACCUGCUGCGGCUACUUCAACUCAAUUAGCCCAACUACA
-----------------------....-----...........(((((.(((((.....)))))..((((.....))))..)))))((.(((((.((......)).)))))))...... ( -15.50)
>DroSim_CAF1 24349 114 + 1
GCCAGAAAUUUCAAUACAAAAGGAGAG-----AGAAGAAUUACGCAGGCAUAUAAAAAAUAUAUAAUUUGUAAAACAAAAACCUGCUGCGGCUACUCCAACUCAAUUAGCCCAACUACA
((......((((..........)))).-----...........(((((.(((((.....)))))..((((.....))))..))))).))(((((............)))))........ ( -15.30)
>DroEre_CAF1 29886 98 + 1
-----------CA-----AAACGAAAG-----AGCAGUAUUACGCAGGCAUAUAAAAAAUAUAUAAUUUGUAAAACAAAAACCUGCUGCGGCUACUUCAACUCAAUUAGCCCAACUACA
-----------..-----...(....)-----....(((....(((((.(((((.....)))))..((((.....))))..)))))((.(((((.((......)).)))))))..))). ( -17.70)
>DroYak_CAF1 30438 119 + 1
GCAAGAAAUUUCAAUACAAAACGAAAGAGAAGAGAAGAAUUACGCAGGCAUAUAAAAAAUAUAUAAUUUGUAAAACAAAAACCUGCUGCGGCUACUUCAACUCAAUUAGCCCAACUACA
(((..................(....)................(((((.(((((.....)))))..((((.....))))..))))))))(((((.((......)).)))))........ ( -18.80)
>consensus
___________CA_____AAACGAAAG_____AGAAGAAUUACGCAGGCAUAUAAAAAAUAUAUAAUUUGUAAAACAAAAACCUGCUGCGGCUACUUCAACUCAAUUAGCCCAACUACA
...........................................(((((.(((((.....)))))..((((.....))))..)))))((.(((((............)))))))...... (-15.10 = -15.10 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:54 2006