Locus 3007

Sequence ID 2L_DroMel_CAF1
Location 8,585,642 – 8,585,747
Length 105
Max. P 0.650229
window4784

overview

Window 4

Location 8,585,642 – 8,585,747
Length 105
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 79.63
Mean single sequence MFE -26.70
Consensus MFE -12.75
Energy contribution -13.19
Covariance contribution 0.45
Combinations/Pair 1.05
Mean z-score -2.30
Structure conservation index 0.48
SVM decision value 0.24
SVM RNA-class probability 0.650229
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8585642 105 + 22407834
------AUCUGUCUCUGUCUUCC----UCCUG-GAUUUUAUGUAAAUUUUU-CGUGCAAAUUGCUUUUAAUGCAUUUUGAAUGCAAUUUGUGUUUUGUAUGCU-GGAACCGGAGUGGU
------..............(((----(((.(-(.(((((.(((.((....-.(..((((((((.(((((......))))).))))))))..)...)).))))-)))))))))).)). ( -24.20)
>DroVir_CAF1 21292 106 + 1
-----CCUCUGUCUCACUCCUCA----UCGUUUACUUUUAUGCAAAUUU-U-CGUGCAAAUUGCUUUUAAUGCAUUUUGAAUGCAAUUUGUGUUUUGUACGUU-GGAAUUGAAGUGGC
-----...(((..(((.(((...----.(((..........(((((...-.-.(..((((((((.(((((......))))).))))))))..)))))))))..-)))..)))..))). ( -20.70)
>DroPse_CAF1 38429 109 + 1
------AUCC--CUUUGGCUUUUGCCAAACGG-AGUUUUAUGCAAAUUUUUGCGUGCAAAUUGGUUUUAAUGCAUUUUGAAUGCAAUUUGUGUUUUGUAUGUUUGAAAUUGGAGUGCG
------.(((--.((((((....)))))).))-).....((((((....))))))(((..(..(((((((.((((...((((((.....))))))...)))))))))))..)..))). ( -34.00)
>DroSim_CAF1 26834 105 + 1
------AUCUGUCUCUGUCUUCC----UCCUG-GAUUUUAUGUAAAUUUUU-CGUGCAAAUUGCUUUUAAUGCAUUUUGAAUGCAAUUUGUGUUUUGUAUGCU-GGAACCGGAGUGGU
------..............(((----(((.(-(.(((((.(((.((....-.(..((((((((.(((((......))))).))))))))..)...)).))))-)))))))))).)). ( -24.20)
>DroMoj_CAF1 30263 111 + 1
CUUGGCAUCUGUCUCGCUCGUCA----GCGUUUACUUUUAUGCAAAUUU-U-CGUGCAAAUUGCUUUUAAUGCAUUUUGAAUGCAAUUUGCGUUUUGUACGUU-GGAAUUGAAGUGGU
...(((....)))((((((((((----((((..((....(((((((((.-.-(((.((((.(((.......))).)))).))).)))))))))...)))))))-))...)).))))). ( -27.70)
>DroPer_CAF1 40004 109 + 1
------AUCC--CUUUGGCUUUUGGCAAACGG-AGUUUUAUGCAAAUUUUUGCGUGCAAAUUGGUUUUAAUGCAUUUUGAAUGCAAUUUGUGUUUUGUAUGUUUGAAAUUGGAGUGCG
------.(((--.((((.(....).)))).))-).....((((((....))))))(((..(..(((((((.((((...((((((.....))))))...)))))))))))..)..))). ( -29.40)
>consensus
______AUCUGUCUCUGUCUUCA____UCCUG_AAUUUUAUGCAAAUUUUU_CGUGCAAAUUGCUUUUAAUGCAUUUUGAAUGCAAUUUGUGUUUUGUAUGUU_GGAAUUGGAGUGGU
......................................((((((((.......(..((((((((.(((((......))))).))))))))..)))))))))................. (-12.75 = -13.19 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:59 2006