Locus 1063

Sequence ID X_DroMel_CAF1
Location 3,107,796 – 3,107,911
Length 115
Max. P 0.557362
window1725

overview

Window 5

Location 3,107,796 – 3,107,911
Length 115
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 78.57
Mean single sequence MFE -30.36
Consensus MFE -20.60
Energy contribution -20.20
Covariance contribution -0.40
Combinations/Pair 1.27
Mean z-score -1.49
Structure conservation index 0.68
SVM decision value 0.05
SVM RNA-class probability 0.557362
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3107796 115 + 22224390
AAGGAAGCUCUGAUCCAUUUU-GUUCAGUGUAUUAGCCCAUCCAUAUGUGUGCUUGUAUGCACUUUGUGUGUGUACUAGUGAGUGGAAAGUGGUGUAUUAAUUUAUCACGGUAGAA
......((.((((........-..)))).))....(((..(((((.....((((.((((((((.....)))))))).)))).)))))..((((((........))))))))).... ( -29.40)
>DroSec_CAF1 66965 116 + 1
UGGGAAGCUCCUAUCCAUUUUUUUUCAGUGCAUUAGCCCAUCCAUAUGUGUUCUUGUAUGCACUAUGUGUGUGUACUAGUGAGUGGAAAAUGGUGUAUUAAUUUAUCACGGUAGAA
((((.....))))..(((..(((((((.(.((((((..((..(((((((((........)))).)))))..))..))))))).)))))))..)))......(((((....))))). ( -30.60)
>DroSim_CAF1 67887 116 + 1
UGGGAAGCUCCUAUCCAUUUUUUUUCAGUGCAUUAUCCCAUCCAUAUGUGUGCUUGUAUGCACUAUGUGUGUGCACUAGUGAGUGGAAAAUGGUGUAUUAAUNNNNNNNNNNNNNN
((((.....))))..(((..(((((((.(.(((((...((..((((((.((((......))))))))))..))...)))))).)))))))..)))..................... ( -27.80)
>DroEre_CAF1 67419 115 + 1
UGAAGUGUUUUGAUCCACUUU-GUGCAGUGUACCAGCCCAUCCACAAGUGUGCUGGUGUGCACUUCGUGUGUGUACGAGUGAGUGGAAAAUGGUGUAUUAAUUUAUCACGGUAGAA
.............(((((((.-(((((...(((((((.(((......))).))))))))))))((((((....)))))).)))))))..((.(((((......)).))).)).... ( -34.10)
>DroYak_CAF1 71752 111 + 1
UGCAAGGCUCUGAUCCUUUUC-AUGCAGUGUACUAGGCCAUCCAUA--UGCACUUGUAGGCACUUU--GUGUGUACCAGUGAGUGGAAAAUGGUGUAAUAAUUUAUCACAAGAGAA
((((..((..(((......))-).))..)))).((.(((((((((.--..((((.(((.((((...--)))).))).)))).)))))...)))).))................... ( -29.90)
>consensus
UGGGAAGCUCUGAUCCAUUUU_GUUCAGUGUAUUAGCCCAUCCAUAUGUGUGCUUGUAUGCACUUUGUGUGUGUACUAGUGAGUGGAAAAUGGUGUAUUAAUUUAUCACGGUAGAA
..........................(((((((((.....(((((.....((((.((((((((.....)))))))).)))).)))))...)))))))))................. (-20.60 = -20.20 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:40 2006