Locus 1608

Sequence ID 3R_DroMel_CAF1
Location 4,640,236 – 4,640,346
Length 110
Max. P 0.965418
window2652

overview

Window 2

Location 4,640,236 – 4,640,346
Length 110
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 80.92
Mean single sequence MFE -25.08
Consensus MFE -19.80
Energy contribution -19.17
Covariance contribution -0.64
Combinations/Pair 1.20
Mean z-score -3.74
Structure conservation index 0.79
SVM decision value 1.58
SVM RNA-class probability 0.965418
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4640236 110 - 27905053
AAACAAUUGUACAUGGCUUUCGUAAAGAAAUUUAUGAAGGCUUUGUAUGAUUAACCAAAAAAA--AAUCCACAAAUUUGUGUUUUUAUUUGC-GUUAU-CACGUAC-AGUUUUUC
....((((((((..((((((((((((....)))))))))))).....((((.(((((((.(((--((..((((....))))))))).)))).-)))))-)).))))-)))).... ( -32.30)
>DroGri_CAF1 15015 107 - 1
AAACAAUUGUACACGGCUUUCGUAAAGAAAUUUAUCGAAGCUUUGUAUAAUUAACCAAAAAAAAACAACCUGAUCUUUGUGUUAUUAUUUGC-UUUAUUC---CAACAUUC----
.((((((((((((.((((((.(((((....))))).)))))).)))))))))............((((........))))))).........-.......---........---- ( -20.80)
>DroSim_CAF1 12720 109 - 1
AAACAAUUGUACAUGGCUUUCGUAAAGAAAUUUAUUAAAGCUUUGUAUGAUUAACCAAAAA-A--AAUCCUGAAAUUUGUGUUUUUAUUUGC-GUUAU-CACGCAC-AGUUUUUC
(((((((..((((.((((((.(((((....))))).)))))).))))..))).......((-(--((..(........)..)))))...(((-((...-.))))).-.))))... ( -24.90)
>DroEre_CAF1 12772 108 - 1
AAACAAUUGUACAUGGCUUUCGUAAAGUAAUUUAUUAAAGCUUUGUAUAAUUAACCAAA--AA--AAUCCUCAAAUUUGUGUUUUUAUUUGC-GUUAU-CACGUAC-AGUUUUUC
(((((((((((((.((((((.(((((....))))).)))))).)))))))))(((((((--.(--((..(.((....)).)..))).)))).-)))..-.......-.))))... ( -24.10)
>DroYak_CAF1 12710 110 - 1
AAACAAUUGUACAUGGCUUUCGUAAAGUAAUUUAUUAAAGCUUUGUAUAAUUAACCAAAAAAA--AAUCCUCAAAUUUGUGUUUUCAUUUGC-GUUAU-CACGUAC-AGUUUUUC
(((((((((((((.((((((.(((((....))))).)))))).)))))))))(((((((..((--((..(........)..))))..)))).-)))..-.......-.))))... ( -24.00)
>DroAna_CAF1 12587 90 - 1
AAACAAUUGUACACGGCUUUCGUAAAGUGAUUUAUUAAAGCCUUGUAUAAUUAAGAAAAAC--------AACAAAUUUGUGUUUUUAUUUUCCAUUAG-----------------
....(((((((((.((((((.(((((....))))).)))))).)))))))))...((((((--------(.((....)))))))))............----------------- ( -24.40)
>consensus
AAACAAUUGUACAUGGCUUUCGUAAAGAAAUUUAUUAAAGCUUUGUAUAAUUAACCAAAAAAA__AAUCCUCAAAUUUGUGUUUUUAUUUGC_GUUAU_CACGUAC_AGUUUUUC
....(((((((((.((((((.(((((....))))).)))))).)))))))))............................................................... (-19.80 = -19.17 +  -0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:45 2006