Locus 5400

Sequence ID 2R_DroMel_CAF1
Location 17,439,592 – 17,439,688
Length 96
Max. P 0.630138
window8615

overview

Window 5

Location 17,439,592 – 17,439,688
Length 96
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 82.38
Mean single sequence MFE -31.78
Consensus MFE -17.40
Energy contribution -17.48
Covariance contribution 0.08
Combinations/Pair 1.05
Mean z-score -2.59
Structure conservation index 0.55
SVM decision value 0.20
SVM RNA-class probability 0.630138
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17439592 96 - 20766785
-------------GGGGAUUGAGAGUGGGUGGUUGACC---GACCGACCAUAUUUCAACUACAAAAUGCCAAAAGGUAUUUUAAGUAGUUUCGAACUGAUUCCGAGCGCCAU
-------------((.(.(((.((((.((((((((...---...))))).......((((((((((((((....))))))))..))))))....))).))))))).).)).. ( -30.60)
>DroPse_CAF1 168722 97 - 1
--------------GGGCUUGGGCUUGGGC-UUGGACCGGUGCCGUACCAUAUUUCAACUACAAAAUGCCAAAAGGUAUUUUAAGUAGUUUCGAACUGAUUCCGAGCGCCAU
--------------((((((((..(..(..-.(((..((....))..)))...(((((((((((((((((....))))))))..))))))..))))..)..)))))).)).. ( -33.30)
>DroEre_CAF1 155251 109 - 1
GUUCAGGGGUUCAGGGGUUGGCGAGUGGGUGGUUGACC---GACCGACCAUAUUUCAACUACAAAAUGCCAAAAGGUAUUUUAAGUAGUUUCGAACUGAUUCCGAGCGCCAU
.....((.((((.(((((..((((((((.(((((....---))))).)))).....((((((((((((((....))))))))..)))))))))..)..))))))))).)).. ( -40.90)
>DroYak_CAF1 139497 96 - 1
-------------GGGGAUAGCGAGUGGGUGGUUGACC---GACCGACCAUAUUUCAACUACAAAAUGCCAAAAGGUAUUUUAAGUAGUUUCGAACUGAUUCCGAGCGCCAU
-------------.......(((..((((((((((...---...)))))))..(((((((((((((((((....))))))))..))))))..)))......)))..)))... ( -29.30)
>DroAna_CAF1 141622 88 - 1
-----------------------GGUGGGCGGUAGACCA-UGGCAGACCAUAUUUCAACUACAAAAUGCCAAAAGGUAUUUUAAGUAGUUUCGAACUGAUUCCGAGCGCCAU
-----------------------((((..((((((...(-(((....))))..(((((((((((((((((....))))))))..))))))..))))))...)))..)))).. ( -25.80)
>DroPer_CAF1 168765 91 - 1
--------------GGGCUUG------GGC-UUGGACCGGUGCCGUACCAUAUUUCAACUACAAAAUGCCAAAAGGUAUUUUAAGUAGUUUCGAACUGAUUCCGAGCGCCAU
--------------(((((((------(..-(..(...((((...))))....(((((((((((((((((....))))))))..))))))..))))..)..)))))).)).. ( -30.80)
>consensus
______________GGGAUUG_GAGUGGGCGGUUGACC___GACCGACCAUAUUUCAACUACAAAAUGCCAAAAGGUAUUUUAAGUAGUUUCGAACUGAUUCCGAGCGCCAU
...........................((((.........................((((((((((((((....))))))))..))))))(((.........))).)))).. (-17.40 = -17.48 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:52 2006