Locus 4640

Sequence ID 3L_DroMel_CAF1
Location 13,179,938 – 13,180,058
Length 120
Max. P 0.725695
window7285

overview

Window 5

Location 13,179,938 – 13,180,058
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.51
Mean single sequence MFE -24.53
Consensus MFE -16.33
Energy contribution -18.17
Covariance contribution 1.83
Combinations/Pair 1.00
Mean z-score -1.66
Structure conservation index 0.67
SVM decision value 0.41
SVM RNA-class probability 0.725695
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13179938 120 - 23771897
CAGCAAGACCUAAUUGGCAACGCCUUUUGCCACUGCAAGUGACAGGAAACUUUCAGGCCAAGCGGCACCGGCAAACUAAUUAGCCUUAAAAUAAAACCAACACACACAGAAAAAAAUGAA
....(((..((((((((....(((...((((.((((...(((.((....)).))).))..)).))))..)))...)))))))).)))................................. ( -25.50)
>DroVir_CAF1 63122 93 - 1
CAGC--AAUCUAAUUGGCAAUGCCU-UUGCCACUGCAAGUGACAGGAAACUUUCAUGCCCAGCG---CCGGGAAACUAAUUAACCUGAAAACAAAAUUG---------------------
..((--........((((((.....-))))))(((...((((.((....)).))))...))).)---)((((...........))))............--------------------- ( -21.60)
>DroSim_CAF1 29615 120 - 1
CAGCGAGACCUAAUUGGCAACGCCUUUUGCCACUGCAAGUGACAGGAAACUUUCAGGCCAAGCGGCACCGGCAAACUAAUUAGCCUUAAAAUAAAACCAACACACACAGGAAAAAAUGGA
....(((..((((((((....(((...((((.((((...(((.((....)).))).))..)).))))..)))...)))))))).))).........(((.................))). ( -26.13)
>DroEre_CAF1 35075 120 - 1
CAGCAAGACCUAAUUGGCAACGCCUUUUGCCACUGCAAGUGACAGGAAACUUUCAGGCCAAGCGGCACCGGCAAACUAAUUAGCCUUAAAAUAAAACCAACACACACAGGAAAAAGCGGA
..(((((..((((((((....(((...((((.((((...(((.((....)).))).))..)).))))..)))...)))))))).))).........((..........)).....))... ( -28.00)
>DroYak_CAF1 30533 120 - 1
CAGCAAGACCUAAUUGGCAACGCCUUUUGCCACUGCAAGUGACAGCAAACUUUCAGGCCAAGCGGCACCGGCAAACUAAUUAGCCUUAAAAUAAAACCAACACACACAGGAAAAAAUGGA
....(((..(((((((((...))).((((((.(((.((((........)))).)))(((....)))...))))))..)))))).))).........(((.................))). ( -24.23)
>DroMoj_CAF1 80584 93 - 1
UGGCG-AAUCUAAUUGGCAACGCCUUUUGCCACUGCAAGUGACAGGAAACAUUCAGGCCCAGUG---CCGGGAAACUAAUUAACCUGAAAACAAAAA-----------------------
(((((-((.......(((...))).)))))))......((..((((.........(((.....)---))((....))......))))...)).....----------------------- ( -21.70)
>consensus
CAGCAAGACCUAAUUGGCAACGCCUUUUGCCACUGCAAGUGACAGGAAACUUUCAGGCCAAGCGGCACCGGCAAACUAAUUAGCCUUAAAAUAAAACCAACACACACAGGAAAAAAUGGA
.........((((((((....(((...((((.((((...(((.((....)).))).))..)).))))..)))...))))))))..................................... (-16.33 = -18.17 +   1.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:13 2006