Locus 3390

Sequence ID 2L_DroMel_CAF1
Location 9,817,760 – 9,817,867
Length 107
Max. P 0.567304
window5363

overview

Window 3

Location 9,817,760 – 9,817,867
Length 107
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 81.00
Mean single sequence MFE -27.37
Consensus MFE -16.55
Energy contribution -16.69
Covariance contribution 0.14
Combinations/Pair 1.24
Mean z-score -1.73
Structure conservation index 0.60
SVM decision value 0.07
SVM RNA-class probability 0.567304
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9817760 107 - 22407834
AUGCCAGUCAACCGAUUGUUGUUCUGCUCGACGGCCCAAUUAUGCCGUCAAAUAGCAAUUAAAAGCGGCAAAAUGAACG-CAAAGGCCGAAAGGAACAAAAGCGC-GAC------
.((((((((....)))))(((((((..((((((((........)))))).....((........))(((....((....-))...)))))..)))))))....))-)..------ ( -30.40)
>DroPse_CAF1 28144 111 - 1
GUGUCCGUCAGCCAAAUUUUGUUCUGCUCGACGGCUCAAUUAUGCCGUGUAUUGGCAAUUAAAACCGCUA-AACGAACG-CCAAAACAAUCACAACUGA-AGUGC-GGAAUGAUA
..................(..((((((.(.(((((........)))))((.(((((..............-.......)-)))).))............-.).))-))))..).. ( -25.00)
>DroSim_CAF1 29598 106 - 1
AUGCCAGUCAACCGAUUGUUGUUCUGCUCGACGGCCCAAUUAUGCCGUCAAAUAGCAAUUAAAAGCGGCA-AAUGAACG-CAAAGGCCAACAGGAACAAAAGCGC-GAC------
.((((((((....)))))((((((((((.((((((........))))))....)))..........(((.-..((....-))...)))....)))))))....))-)..------ ( -29.20)
>DroEre_CAF1 29044 105 - 1
AUGCCAGUCAACCGAUUGUUGUUCUGCUCGACGGCCCAAUUAUGCCGUCAAAUAGCAAUUAAAAGCGGCA-AAUGAACG-CAAAGGCCAUCUCGAACAA-AGCGC-GAC------
.((((((((....)))))((((((((((.((((((........))))))....)))).........(((.-..((....-))...))).....))))))-...))-)..------ ( -28.90)
>DroYak_CAF1 27010 105 - 1
AUGCCAGUCAACCGAUUGUUGUUCUGCUCGACGGCCCAAUUAUGCCGUCAAAUGGCAAUUAAAAGCGGCA-AAUGAACG-CAAAGGCCAACGCGAACAA-AGCGC-GAC------
.((((((((....)))))((((((.((..((((((........))))))...((((........(((...-......))-)....))))..))))))))-...))-)..------ ( -31.60)
>DroAna_CAF1 26816 99 - 1
---------AGCCGAUUGUAGUUCUGCUCGACGGCCCAAUUAUGCCGUCAAAUAGCAAUUAAAACCGAUA-AAUGAACACCAAAAACCAUCUGGACCAAAAACGCAGAC------
---------.............(((((..((((((........)))))).....................-...............((....)).........))))).------ ( -19.10)
>consensus
AUGCCAGUCAACCGAUUGUUGUUCUGCUCGACGGCCCAAUUAUGCCGUCAAAUAGCAAUUAAAAGCGGCA_AAUGAACG_CAAAGGCCAACACGAACAA_AGCGC_GAC______
............((....((((((((((.((((((........))))))....)))).........(((................))).....))))))...))........... (-16.55 = -16.69 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:16 2006