Locus 3879

Sequence ID 2L_DroMel_CAF1
Location 11,351,889 – 11,351,995
Length 106
Max. P 0.842482
window6100

overview

Window 0

Location 11,351,889 – 11,351,995
Length 106
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 88.02
Mean single sequence MFE -32.22
Consensus MFE -24.04
Energy contribution -23.84
Covariance contribution -0.20
Combinations/Pair 1.25
Mean z-score -2.06
Structure conservation index 0.75
SVM decision value 0.76
SVM RNA-class probability 0.842482
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11351889 106 - 22407834
GUGUGGAGUGUGCCAAGGUCUUAGGCCUGCUUCAAGGAGCGUGGCCCAAGAGCUAAUUCACAAGCAGU-GGGGGGUAACUUCAAGAAACACAUUAUUGAAUAUACAA
(((((((((.((((.((.((((.(((((((((....))))).)))).)))).))..(((((.....))-))).))))))))).....))))................ ( -35.10)
>DroSec_CAF1 69107 104 - 1
--GUGGAGUGUGCCAAGGUCUUAGGCCUGCUUCAAGGAGCGUGGCCCAAGAGCUAAUUCACCAGCAGU-GGGGGAUAACUCCAAAAAACACAUUAUUGAAUAUACUA
--.((((((...((.((.((((.(((((((((....))))).)))).)))).))..(((((.....))-)))))...))))))........................ ( -35.30)
>DroSim_CAF1 73863 104 - 1
--GUGGAGUGUGCCAAGGUCUUAGGCCUGCUUCAAGGAGCGUGGCCCAAGAGCUAAUUCACCAGCAGU-GGGGGGUAACUUCAAAAAACACAUUAUUGAAUAUACUA
--.((((((.((((.((.((((.(((((((((....))))).)))).)))).))..(((((.....))-))).))))))))))........................ ( -33.50)
>DroEre_CAF1 72508 102 - 1
--GUGGAGUGUGCCAAGGUCUUAGGCCUGCUUCAAGGAACGUGGCCCAAUAGCUAAUUCAUAAGCAGU-GGGGCGUAACUUCGAGGAA--CAUUACUGAAUGUCAAA
--..(((((((.((.((((.....))))...(((((..((((..((((...(((........)))..)-)))))))..))).)))).)--)))).)).......... ( -26.50)
>DroYak_CAF1 70560 105 - 1
--GCGGAGUGUGCCAAGGUCUUAGGCCUGCUUCAAGAAACGUGGCCCAGGAGCUAAUUCCUAAACAGUUGAGGGGUAGCUUCAAAAAACACAUUACCGAAUAUAAAA
--.((((((((((((...(((((((....))).))))....))))...(((((((.(((((.........)))))))))))).......))))).)))......... ( -30.70)
>consensus
__GUGGAGUGUGCCAAGGUCUUAGGCCUGCUUCAAGGAGCGUGGCCCAAGAGCUAAUUCACAAGCAGU_GGGGGGUAACUUCAAAAAACACAUUAUUGAAUAUACAA
...(((((((((...((.((((.(((((((((....))))).)))).)))).))...............((((.....))))......)))))).)))......... (-24.04 = -23.84 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:31 2006