Locus 1029

Sequence ID 3L_DroMel_CAF1
Location 3,058,703 – 3,058,796
Length 93
Max. P 0.558086
window1588

overview

Window 8

Location 3,058,703 – 3,058,796
Length 93
Sequences 5
Columns 103
Reading direction forward
Mean pairwise identity 84.00
Mean single sequence MFE -26.94
Consensus MFE -19.23
Energy contribution -19.71
Covariance contribution 0.48
Combinations/Pair 1.10
Mean z-score -1.62
Structure conservation index 0.71
SVM decision value 0.05
SVM RNA-class probability 0.558086
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3058703 93 + 23771897
CCGAGCGUAAACAAGAGAGGCUCAGACGAAAUUGGAGAUCUUCAGCUCGGC---------AGUCUCUCUGUUUAUGUGUUUUAAUUU-UUUGGCCAAAAGCGG
(((.(((((((((.((((((((....(((..(((((....))))).)))..---------)))))))))))))))))........((-(((....)))))))) ( -27.60)
>DroSec_CAF1 19318 100 + 1
--UAGCGUAAACAAGAGAGGCUCAGACGAAAUUGGAGAUCUUCAGCUCGUCAGUCUCAGCAGUCUCUCUGUUUAUGUGUUUUAAUUU-UUUGGCCAAAAGCGG
--..(((((((((.((((((((..(((((..(((((....))))).))))).((....)))))))))))))))))))..........-....((.....)).. ( -30.00)
>DroSim_CAF1 19125 98 + 1
--UAGCGUAAACAAGAGAGGCUCAGACGAAAUUGGAGAUCUUCAGCUCGGCAGUCUCAGCAGUCUCUUUGUUUAUGUGUUUUAAUU---UUGGCCAAAAGCGG
--..((((((((((((((.(((.((((.....(.(((........))).)..)))).)))..)))).)))))))))).........---...((.....)).. ( -26.60)
>DroEre_CAF1 19583 97 + 1
--UAGCGUAAACAAGAGAGGCUCCUACGAAAUUGGAGAUCUUGAGCUCGGCAA----GGCAGUCUCUCUGUUUAUGUGUAUUAAUUUGUUUGCCCAAAAGCGG
--..(((((((((.(((((((((((.(((..(..(.....)..)..)))...)----)).))))))))))))))))).........(((((......))))). ( -31.40)
>DroYak_CAF1 19662 82 + 1
--UAGCGUAAACAAGAGAGGUUCCUACGAAACUGGAGAUCUUGA-----------------GUCUCUCUGUUUAUGUGUAUUAAUUU--UUGGCCAAAAGCGG
--..(((((((((.(((((..((...................))-----------------..))))))))))))))..........--...((.....)).. ( -19.11)
>consensus
__UAGCGUAAACAAGAGAGGCUCAGACGAAAUUGGAGAUCUUCAGCUCGGCA______GCAGUCUCUCUGUUUAUGUGUUUUAAUUU_UUUGGCCAAAAGCGG
....(((((((((.((((((((............(((........)))............))))))))))))))))).......................... (-19.23 = -19.71 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:13 2006