Locus 378

Sequence ID 2R_DroMel_CAF1
Location 2,360,291 – 2,360,394
Length 103
Max. P 0.955304
window745

overview

Window 5

Location 2,360,291 – 2,360,394
Length 103
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 74.60
Mean single sequence MFE -28.55
Consensus MFE -19.67
Energy contribution -20.68
Covariance contribution 1.00
Combinations/Pair 1.24
Mean z-score -1.88
Structure conservation index 0.69
SVM decision value 1.45
SVM RNA-class probability 0.955304
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2360291 103 - 20766785
--CAUGG--U-------------GGAACGAAAUGGUUUUAAGGCAAUGAAACAUUUUAAGAUUGCCCGUCAGAAAUUUUAAAAUCAUUUCUUAUUCAUUGCCGUGCACAAAAAGCAUGAC
--...((--(-------------(((..(((((((((((((((((((.............))))))(....).....)))))))))))))...))))))..(((((.......))))).. ( -24.32)
>DroSec_CAF1 9750 96 - 1
GCCAUCGAAU-------------GGCAUGGAGUGGUUUUAAGGCACUUAAACAUUUUACGAGUGCCCGUCU-----------UUCAUUUCUUAUUCAUUGAGGUGCACAAAAAGCAUGAC
(((((...))-------------)))..(((((((......(((((((...........))))))).....-----------.)))))))............((((.......))))... ( -23.50)
>DroSim_CAF1 9857 107 - 1
GCCAUCGAAU-------------GGAAUGAAGUGGUUUUAAGGCACUUAAACAUUUCAAGAGUGCCCGUCAGAUAUGUUCAAAUCAUUUCUUAUUCAUUAACGUGCACAAAAAGCAUGAC
.......(((-------------(((..((((((((((...(((((((...........))))))).....((.....))))))))))))...))))))..(((((.......))))).. ( -27.20)
>DroEre_CAF1 9846 120 - 1
GGCAUCGAAUCGAGGAGCAGAGUGCAGGGGAAUGGUUUUGGGGCACUCAGACAUUUGAAGAGUGCCUGUCAGCUAUGUUAAAAUCAUUUCUUAUUCAUUGGCGUGCGCAAAAAGCAUGCC
.((.(((...)))...)).(((((...(((((((((((((((((((((...........))))))))..((....)).))))))))))))))))))...(((((((.......))))))) ( -39.20)
>consensus
GCCAUCGAAU_____________GGAAUGAAAUGGUUUUAAGGCACUUAAACAUUUUAAGAGUGCCCGUCAGAUAUGUUAAAAUCAUUUCUUAUUCAUUGACGUGCACAAAAAGCAUGAC
............................((((((((((((((((((((...........)))))))...........)))))))))))))...........(((((.......))))).. (-19.67 = -20.68 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:36:57 2006