Locus 1407

Sequence ID 2L_DroMel_CAF1
Location 3,755,673 – 3,755,782
Length 109
Max. P 0.500000
window2298

overview

Window 8

Location 3,755,673 – 3,755,782
Length 109
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 88.51
Mean single sequence MFE -31.77
Consensus MFE -24.72
Energy contribution -24.87
Covariance contribution 0.14
Combinations/Pair 1.29
Mean z-score -2.23
Structure conservation index 0.78
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3755673 109 + 22407834
CAAGGGCU--AACCUCUCAUGUCAACUUGUUGACUAAGCAAAGUCAGCCCCA-UAUGAGUUAUGAUAUACUCAGCUCUUAAGCAGGAAAAACAAUGAUGAGGGGGAAUUGGU----
.....(((--((((((((((........(((((((......))))))).((.-..(((((........)))))(((....))).))..........))))))))...)))))---- ( -29.70)
>DroSec_CAF1 217620 113 + 1
CAAGGGCU--AACCUCUCAUGUCAACUUGUUGACUAAGCAAAGUCAGCCCCA-UAUGAGUUAUGAUUUACUCAGCUCUUAAGCAGGAAAAACAAUGAUGAGGGGGAAUUGGUAUUC
.....(((--((((((((((........(((((((......))))))).((.-..(((((........)))))(((....))).))..........))))))))...))))).... ( -30.40)
>DroSim_CAF1 224839 114 + 1
CAAGGGCU--AACCUCUCAUGUCAACUUGUUGACUAAGCAAAGUCAGCCCCAUUAUGAGUUAUGAUUUACUCAGCUCUUAAGCAGGAAAAACAAUGAUGAGGGGGAAUUGGUAUUC
.....(((--((((((((((........(((((((......))))))).((....(((((........)))))(((....))).))..........))))))))...))))).... ( -30.40)
>DroEre_CAF1 232250 103 + 1
CAAGGGCU--AACCUCUCGUGUCGACUUGUUGACUAAGCAAAGUCAGCCCCA-UAUGAGUUAUGAUUUACUCAGCUCCUAAGCAGGAAAAACAAUGAUGAGAGGGG----------
........--..((((((((........(((((((......))))))).((.-..(((((........)))))(((....))).))..........))))))))..---------- ( -29.30)
>DroYak_CAF1 236147 113 + 1
CAAGGGCU--AACCUCUCAUGUCAACUUGUUGACUAAGCAAAGUCAGCCCCA-UAUGAGUUAUGAUUUACUCAGCUCUUAAGCGGGAAAAACAAUGAUGUGGGGGAAUUGGCGUUU
.(((.(((--((.(((((((((((....(((((((......)))))))(((.-..(((((........)))))(((....))))))........)))))))))))..))))).))) ( -38.70)
>DroAna_CAF1 246846 115 + 1
AAAGGGCCACAACCUCUCGUGUCAACUUGUUGACUAAGCAAAGUUGGCCUUA-UAUGAGUUAUGAUUUACUCAGCUCUUAAAAAGGCAAAACAAUGAUGAAGAGGAAUCGGCUAUC
....((((....((((((((..(((((((((.....))).))))))(((((.-...((((..(((.....))))))).....))))).........))).)))))....))))... ( -32.10)
>consensus
CAAGGGCU__AACCUCUCAUGUCAACUUGUUGACUAAGCAAAGUCAGCCCCA_UAUGAGUUAUGAUUUACUCAGCUCUUAAGCAGGAAAAACAAUGAUGAGGGGGAAUUGGU_UUC
.....(((....((((((((........(((((((......))))))).((....(((((........)))))(((....))).))..........)))))))).....))).... (-24.72 = -24.87 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:56 2006