Locus 1686

Sequence ID 3R_DroMel_CAF1
Location 4,834,386 – 4,834,484
Length 98
Max. P 0.664927
window2783

overview

Window 3

Location 4,834,386 – 4,834,484
Length 98
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 76.48
Mean single sequence MFE -26.37
Consensus MFE -16.13
Energy contribution -17.22
Covariance contribution 1.09
Combinations/Pair 1.29
Mean z-score -1.45
Structure conservation index 0.61
SVM decision value 0.28
SVM RNA-class probability 0.664927
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4834386 98 + 27905053
UGGGGAAGACUUUUGUUUAUUUCCGAACUUUUUUGUUUAUUU-------UGCGUAGGUGCGCAAGCAAUAUGUGCUCUAUUUGGAGCGCCAGCUGCAGGAGAAUG
.((..(((((....)))).)..))((((......)))).(((-------((((((..(((....))).)))(((((((....))))))).....))))))..... ( -29.20)
>DroVir_CAF1 16878 87 + 1
U----AC---AUAUGUAUAUUUU----GUUUU--AAAUAA-----CAAUUACGCAGGUGCGUGAACAAUAUGUACGCUAUUUGGAGCGCCAGCUACAGGAGAACG
(----((---((((((.....((----(((..--....))-----)))((((((....)))))))).)))))))..((.((((.(((....))).)))))).... ( -19.50)
>DroSec_CAF1 15303 98 + 1
UGGGGAAGACUUUUGUUUAUUUCCUAACUUUUUUGUUUAUGA-------UGCGUAGGUGCGCAAGCAAUAUGUGCUCUAUUUGGAGCGCCAGUUGCAGGAGAAUG
((((((((((....)))..)))))))..((((((((...((.-------.(((((..(((....))).)))))(((((....)))))..))...))))))))... ( -29.90)
>DroSim_CAF1 15769 98 + 1
UGGGGAAAACUUUUGUUUAUUUCCUAACAUUUUUGUUUAUUA-------UGCGUAGGUGCGCACGCAAUAUGUGCUCUAUUUGGAGCGCCAGCUGCAGGAGAAUG
((((((((((....)))..))))))).(((((((........-------(((((....))))).(((....(((((((....)))))))....)))..))))))) ( -28.80)
>DroEre_CAF1 15364 101 + 1
UGUGGAAG-CUUUUGGCA-GUUCCUAACUU--UUGUUUAUUUACGAAACUGCUUAGGUGCAUAAGCAAUAUGUGCUCUAUUUGGAGCGCCAGCUGCAGGAGAAUG
........-((((((.((-(((......((--((((......)))))).((((((......))))))....(((((((....))))))).))))))))))).... ( -27.40)
>DroYak_CAF1 15471 101 + 1
UGUGAAAG-CGUUUGGCU-AUUCCUAACUU--UUGUUUAUUUACAUAACUGCGUAGGUACGCAAGCAAUAUGUGCUAUAUUUGGAGCGCCAGCUGCAGGAGAAUG
.......(-((.(((((.-.((((......--.(((.(((((((........))))))).)))((((.....))))......)))).))))).)))......... ( -23.40)
>consensus
UGGGGAAG_CUUUUGUUUAUUUCCUAACUUUUUUGUUUAUUU_______UGCGUAGGUGCGCAAGCAAUAUGUGCUCUAUUUGGAGCGCCAGCUGCAGGAGAAUG
...................((((((........................(((((....))))).(((....(((((((....)))))))....)))))))))... (-16.13 = -17.22 +   1.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:54 2006