Locus 2397

Sequence ID 2R_DroMel_CAF1
Location 8,638,884 – 8,638,999
Length 115
Max. P 0.793636
window3965

overview

Window 5

Location 8,638,884 – 8,638,999
Length 115
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 85.63
Mean single sequence MFE -26.64
Consensus MFE -18.05
Energy contribution -19.36
Covariance contribution 1.31
Combinations/Pair 1.07
Mean z-score -2.06
Structure conservation index 0.68
SVM decision value 0.59
SVM RNA-class probability 0.793636
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8638884 115 + 20766785
--CUGAUUAUAACAAUUGCCAGUGACAACUCAAGAGAUUAUUCAAUCAGGCAUUUUCAAUGUUAUUUUACCUA---UCUAGUGACUAAUAUCAAGACUGAUUGUCGUUGGCGGUUCUUAU
--......((((.(((((((((((((.........((....))((((((...........((((((.......---...))))))...........))))))))))))))))))).)))) ( -24.85)
>DroSec_CAF1 19058 115 + 1
--CUGAUU-UAACAAUCGCCAGUGACAAGUCGAAAGAUUGUUCAAUCAGGCAUUUUAAAUGUUAU--UACCUAUUAUCUAGUGACUAAUAUCAAGACUGAUUGUCGUUGGCGGUUCUUAU
--......-(((.(((((((((((((.((((....))))....((((((...........(((((--((.........)))))))...........))))))))))))))))))).))). ( -31.85)
>DroSim_CAF1 22736 114 + 1
UACUGAUU-UAACAAUCGCCAGUGACAACUCGAAAGAUUGUCCAAUCAGGCAUUUUCAAUGUUAU--UACCUA---UCUAGUGACUAAUAUCAAGACUGAUUGUCGUUGGCGGUUCUUAU
........-(((.(((((((((.(((((.((....)))))))(((((((...........(((((--((....---..)))))))...........)))))))...))))))))).))). ( -32.45)
>DroYak_CAF1 19052 103 + 1
--CUGAU--UAACUAUUGCAAGUGACA-------AGAUUGUUUAAUCAGGUAUU-UCAAUGUUAU--UACCUA---UCUAGUGACUAAUAUCAUGACUGAUUUGCGUUGGCAGCCCUUAU
--(((.(--((((....((((((((((-------....))))...(((((((((-.....(((((--((....---..))))))).)))))).)))...))))))))))))))....... ( -17.40)
>consensus
__CUGAUU_UAACAAUCGCCAGUGACAACUCGAAAGAUUGUUCAAUCAGGCAUUUUCAAUGUUAU__UACCUA___UCUAGUGACUAAUAUCAAGACUGAUUGUCGUUGGCGGUUCUUAU
.........(((.(((((((((((((...((....))......((((((...........(((((...............)))))...........))))))))))))))))))).))). (-18.05 = -19.36 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:02 2006