Locus 9166

Sequence ID 3R_DroMel_CAF1
Location 24,427,881 – 24,427,995
Length 114
Max. P 0.809777
window14662

overview

Window 2

Location 24,427,881 – 24,427,995
Length 114
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 77.50
Mean single sequence MFE -30.62
Consensus MFE -23.82
Energy contribution -22.38
Covariance contribution -1.44
Combinations/Pair 1.46
Mean z-score -1.19
Structure conservation index 0.78
SVM decision value 0.64
SVM RNA-class probability 0.809777
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24427881 114 + 27905053
CUCCGCACAGCAAUGUUCGAUGUGCUCGUGCGGCGUUU-GUGACUGUUAGAAUAAAUUCCAGCCAGUAUUAUAUCAUUGUUGUUGGUGC--UCUUCGUGCAUCAACGAUGAAAGAGU
(.((((((((((..........)))).)))))).)...-...((((((.(((....))).)).)))).........(..((((((((((--.......))))))))))..)...... ( -32.40)
>DroVir_CAF1 988 113 + 1
CUCCGCAUAGCAAUGUUUGAUGUGUCUGUGCGGCGUUUCAUGACUGUAAGAAGAAUUA--UGCACGUAUUAUAUC--UGUUAAUUGGGCACCCUGUAUGCCUAAUUGAUGAAAACGU
..((((((((((..........)).))))))))((((((...((((((.((....)).--)))).))........--.((((((((((((.......))))))))))))).))))). ( -28.70)
>DroPse_CAF1 2052 114 + 1
CUCCGCAUAGCAAUGUUCGAUGUGUCUGUGCGGCGUUUCAUGACUGUAAAAUAAAAGCCCAGCCAGUAUUAUAUCACUGUUGGUGAUGU--U-UUCGUGCAUCAGCGAUGAAAGAGU
(.((((((((((..........)).)))))))).)((((((..(((....(..((((((((((.(((........))))))))....))--)-))..)....)))..)))))).... ( -28.70)
>DroGri_CAF1 953 115 + 1
CUCCGCAUAGCAAUGUUUGAUGUGUCUGUGCGGCGUUUCAUGACUGUAAUAUAAACGU--UGCACAUAUUAUAUUAUUGUUAAUGAGGCACCCUGUAUGCCCUAUUGAUGAAAACGU
............((((((((((((..((((((((((((.(((.......)))))))))--))))))...)))))).(..((((((.((((.......)))).))))))..))))))) ( -30.10)
>DroMoj_CAF1 989 115 + 1
CUCCGCAUAGCAAUGUUUGAUGUGUCUGUGCGGCGUUCAUUGACUGUAAUAGAAAUUU--CGCACGUAUUAUAUCUUUGUUGCUUAGGCACCCAGAAUGCCUAACUGAUGAAAACGU
.....(((.((((((...((((((..(((((((..(((((((....)))).)))...)--))))))...))))))..))))))(((((((.......)))))))...)))....... ( -28.80)
>DroPer_CAF1 2793 114 + 1
CUCCGCAUAGCAAUGUUCGAUGUGUCUGUGCGGCGUUUCAUGACUGUAAAAUGAAAACCCAGUCAGUAUUAUAUCAUUGUUGCUGAUGU--U-UUCGUGCAUCAGCGAUGAAAGAGU
(.((((((((((..........)).)))))))).).(((.((((((.............))))))...........(..((((((((((--.-.....))))))))))..)..))). ( -35.02)
>consensus
CUCCGCAUAGCAAUGUUCGAUGUGUCUGUGCGGCGUUUCAUGACUGUAAAAUAAAAUU__AGCAAGUAUUAUAUCAUUGUUGAUGAGGC__CCUGCAUGCAUCAGCGAUGAAAAAGU
(.((((((((((..........)).)))))))).).........................................(((((((((((((.........)))))))))))))...... (-23.82 = -22.38 +  -1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:28:01 2006