Locus 8858

Sequence ID 3R_DroMel_CAF1
Location 23,773,781 – 23,773,872
Length 91
Max. P 0.989427
window14220 window14221

overview

Window 0

Location 23,773,781 – 23,773,872
Length 91
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 71.63
Mean single sequence MFE -17.40
Consensus MFE -2.72
Energy contribution -2.32
Covariance contribution -0.40
Combinations/Pair 1.56
Mean z-score -1.83
Structure conservation index 0.16
SVM decision value 0.70
SVM RNA-class probability 0.826329
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23773781 91 + 27905053
CAGCACAAGUC---------CACCCACAUGUG----GGUGCGGAACCUUAACGCCAUGGCAAAU----------------AAAAAUACCAACAUUAAAAUAUUUAACUUAACAUUGUAAA
....((((.((---------((((((....))----)))).)).........((....))....----------------.................................))))... ( -14.80)
>DroSec_CAF1 8291 91 + 1
CAGCCCAAGUC---------CACCCACAUGUG----GAUGCUGAACCUUAACGCCAUGGCAAAU----------------AAAAAUACCAAUAUUAAAAUAUUUAACUUAACUUUGUAAA
((((....(((---------(((......)))----))))))).........((....))....----------------........................................ ( -14.10)
>DroSim_CAF1 5466 90 + 1
CAGUCAAAGUC---------CACCCACAUGUG----GGUGC-GAACCUUAACGCCGUGGCAAAU----------------UAAAAUACCACCAUUAAAAUAUUUAACUUAACUUUGUAAA
....(((((((---------((((((....))----)))).-))...........((((.....----------------.......))))....................))))).... ( -17.60)
>DroEre_CAF1 5519 120 + 1
CAAGCCAAGUCCAGAAAUGCCACCCACAUGUGGGUGGGUGCAGAACUUAAAUAUCGUGAAGAAAAAUACUUAAAUACUAGAAAAAUACCAACAUUAAAAUGUUUUACUAAACUUUAUAAA
...(((.....((....))(((((((....)))))))).))..............((((((.......((........)).........(((((....)))))........))))))... ( -19.90)
>DroYak_CAF1 8319 112 + 1
CAGGCCACGUCCAGAUAUGCCACCCACAUGUG----GGUGCAGAACUUUAAUUUUGCGGAGUAUUAAAC----AUACUAGAAACGUACCAACAUUAAAAUAUUUAACUUAACAUUAUAAA
..((..((((.........(((((((....))----)))((((((......))))))))(((((.....----)))))....)))).))............................... ( -20.60)
>consensus
CAGCCCAAGUC_________CACCCACAUGUG____GGUGCAGAACCUUAACGCCGUGGCAAAU________________AAAAAUACCAACAUUAAAAUAUUUAACUUAACUUUGUAAA
..........................((((((....(((.....)))....)).)))).............................................................. ( -2.72 =  -2.32 +  -0.40)

alignment

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secondary structure

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dotplot

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Window 1

Location 23,773,781 – 23,773,872
Length 91
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 71.63
Mean single sequence MFE -26.18
Consensus MFE -8.10
Energy contribution -8.46
Covariance contribution 0.36
Combinations/Pair 1.31
Mean z-score -2.36
Structure conservation index 0.31
SVM decision value 2.16
SVM RNA-class probability 0.989427
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23773781 91 - 27905053
UUUACAAUGUUAAGUUAAAUAUUUUAAUGUUGGUAUUUUU----------------AUUUGCCAUGGCGUUAAGGUUCCGCACC----CACAUGUGGGUG---------GACUUGUGCUG
..(((((.(((.........(((((((((((((((.....----------------...)))))..))))))))))....((((----((....))))))---------))))))))... ( -25.90)
>DroSec_CAF1 8291 91 - 1
UUUACAAAGUUAAGUUAAAUAUUUUAAUAUUGGUAUUUUU----------------AUUUGCCAUGGCGUUAAGGUUCAGCAUC----CACAUGUGGGUG---------GACUUGGGCUG
.......(((((((((....((((((((..(((((.....----------------...)))))....))))))))....((((----((....))))))---------))))).)))). ( -20.60)
>DroSim_CAF1 5466 90 - 1
UUUACAAAGUUAAGUUAAAUAUUUUAAUGGUGGUAUUUUA----------------AUUUGCCACGGCGUUAAGGUUC-GCACC----CACAUGUGGGUG---------GACUUUGACUG
....(((((((.........(((((((((((((((.....----------------...))))))..)))))))))..-.((((----((....))))))---------))))))).... ( -29.50)
>DroEre_CAF1 5519 120 - 1
UUUAUAAAGUUUAGUAAAACAUUUUAAUGUUGGUAUUUUUCUAGUAUUUAAGUAUUUUUCUUCACGAUAUUUAAGUUCUGCACCCACCCACAUGUGGGUGGCAUUUCUGGACUUGGCUUG
......((((((((...(((((....)))))..........(((.(((((((((((.........))))))))))).)))...(((((((....))))))).....))))))))...... ( -27.30)
>DroYak_CAF1 8319 112 - 1
UUUAUAAUGUUAAGUUAAAUAUUUUAAUGUUGGUACGUUUCUAGUAU----GUUUAAUACUCCGCAAAAUUAAAGUUCUGCACC----CACAUGUGGGUGGCAUAUCUGGACGUGGCCUG
.....(((((((((........)))))))))((((((..((((((((----(((.........(((.(((....))).)))(((----((....))))))))))).)))))))).))).. ( -27.60)
>consensus
UUUACAAAGUUAAGUUAAAUAUUUUAAUGUUGGUAUUUUU________________AUUUGCCACGGCGUUAAGGUUCUGCACC____CACAUGUGGGUG_________GACUUGGCCUG
......(((((.........(((((((((((((((........................)))))..))))))))))....((((....((....)))))).........)))))...... ( -8.10 =  -8.46 +   0.36)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:21:25 2006