Locus 9088

Sequence ID 3R_DroMel_CAF1
Location 24,264,188 – 24,264,286
Length 98
Max. P 0.844957
window14548

overview

Window 8

Location 24,264,188 – 24,264,286
Length 98
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 76.59
Mean single sequence MFE -23.43
Consensus MFE -13.83
Energy contribution -13.55
Covariance contribution -0.28
Combinations/Pair 1.09
Mean z-score -1.78
Structure conservation index 0.59
SVM decision value 0.77
SVM RNA-class probability 0.844957
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24264188 98 + 27905053
-----AAAACCGGGUCUAC-----------AC-CAAUGUCC-----GCCGACAAAAUGGUGUGAAAGUGAUUUAUAUUUUAAUUCAAAAAUGAAUUAUUUAACACACUUUUUAAUUCCUU
-----......(((...((-----------((-((.((((.-----...))))...))))))(((((((..(((.....(((((((....)))))))..)))..)))))))....))).. ( -21.00)
>DroVir_CAF1 62412 114 + 1
AGGGGCGCACUGGGAGGUUGGGCUGUGUGUGU-CGAUGGCG-----GCCGACAAAAUGGUGUGAAAGUGAUUUAUAUUUUAAUUCAAAAAUGAAUUAUUUAGCACACUUUUUAAUUCCUU
((((((((((((....(((((.((((......-.....)))-----))))))....)))))))((((((.....((...(((((((....)))))))..))...))))))....))))). ( -28.40)
>DroGri_CAF1 68294 106 + 1
AGGAAAGAACUGUGUAGGC--------ACUUU-UGGCGGCC-----GCCAACAAAAUGGUGUGAAAGUGAUUUAUAUUUUAAUUCAAAAAUGAAUUAUUUAGCACACUUUUUAAUUCCUU
(((((......(((....)--------))..(-((((....-----)))))..(((.((((((.(((((((((((.(((......))).)))))))))))..)))))).)))..))))). ( -26.60)
>DroWil_CAF1 50458 89 + 1
-----AAAGCUGGGUUC---------------------GCC-----GCCGACAAAAUGGUGUGAAAGUGAUUUAUAUUUUAAUUCAAAAAUGAAUUAUUUAGCACACUUUUUAAUUCUUU
-----...((.((....---------------------.))-----)).....(((.((((((.(((((((((((.(((......))).)))))))))))..)))))).)))........ ( -16.40)
>DroMoj_CAF1 40444 106 + 1
AGGGGCGCGCCGAGAGGAC--------CAUGU-CGACGGAG-----ACCGACAAAAUGGUGUGAAAGUGAUUUAUAUUUUAAUUCAAAAAUGAAUUAUUUAGUAUACUUUUUAAUUCCUU
((((((((.((....))((--------(((((-((..(...-----.))))))...))))......)))...((((((.(((((((....)))))))...))))))........))))). ( -25.10)
>DroPer_CAF1 89562 104 + 1
-----CACUCUGGGUCUAC-----------GCCCAAUGUCCCGGACUCCGACAAAAUGGUGUGAAAGUGAUUUAUAUUUUAAUUCAAAAAUGAAUUAUUUAGCACACUUUUUAAUUCCUU
-----...((((((.(...-----------.......).))))))........(((.((((((.(((((((((((.(((......))).)))))))))))..)))))).)))........ ( -23.10)
>consensus
_____AAAACUGGGUCGAC___________GU_CGAUGGCC_____GCCGACAAAAUGGUGUGAAAGUGAUUUAUAUUUUAAUUCAAAAAUGAAUUAUUUAGCACACUUUUUAAUUCCUU
.....................................................(((.((((((.(((((((((((.(((......))).)))))))))))..)))))).)))........ (-13.83 = -13.55 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:26:21 2006