Locus 5677

Sequence ID 2R_DroMel_CAF1
Location 18,011,201 – 18,011,301
Length 100
Max. P 0.609798
window9093

overview

Window 3

Location 18,011,201 – 18,011,301
Length 100
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 74.31
Mean single sequence MFE -22.25
Consensus MFE -14.97
Energy contribution -14.47
Covariance contribution -0.50
Combinations/Pair 1.20
Mean z-score -1.05
Structure conservation index 0.67
SVM decision value 0.15
SVM RNA-class probability 0.609798
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18011201 100 - 20766785
----------------G-GCGGAAUAAAAGGCAAAGUGG-GGGA-GCCACAAUUUUCGCAUUUGAUUUAAUUGUGAAUGUAUUUAUUAAAUAAAUUAUUCAUGGCCAGGGUGAGUGCAC
----------------.-((..........))...((((-....-.)))).......((((((..(((..(..((((((.((((((...))))))))))))..)..)))..)))))).. ( -19.70)
>DroVir_CAF1 30978 83 - 1
CA-----------------------------UGGCCUGG------CUCACAAU-AUUGCAAUUGAUUUAAUUGUGAAUGUAUUUAUUAAAUAAAUUAUUCAUACUCCGCUCGAUUGCAC
..-----------------------------........------........-..(((((((((......((((((((.((((((...))))))))))))))......))))))))). ( -17.30)
>DroGri_CAF1 38398 118 - 1
CAUGCCACAAUUGUACGUACGGCAUGAACGGUGGCCUGG-UGGUCCUCGCAAAUUUCGCAAUUGAUUUAAUUGUGAAUGUAUUUAUUAAAUAAAUUAUUCAUGUUCCGCUCGAUUGCAA
((((((((........))..))))))..(((.((((...-.)))).)))........((((((((......((((((((.((((((...))))))))))))))......)))))))).. ( -31.70)
>DroEre_CAF1 26643 99 - 1
----------------G-GCGGAAUAAAAGGCAAAGUGG-GGGA-GCCACAAU-UUCGCAUUUGAUUUAAUUGUGAAUGUAUUUAUUAAAUAAAUUAUUCAUGGCCAGGGUGAGUGCAC
----------------.-((..........))...((((-....-.))))...-...((((((..(((..(..((((((.((((((...))))))))))))..)..)))..)))))).. ( -19.70)
>DroYak_CAF1 24219 100 - 1
----------------G-GCGGAAUAAAAGGCAAAGUGGAGGGA-GCCACAAU-UUCGCAUUUGAUUUAAUUGUGAAUGUAUUUAUUAAAUAAAUUAUUCAUGGCCAGGGUGAGUGCAC
----------------.-((..........))...((((.....-.))))...-...((((((..(((..(..((((((.((((((...))))))))))))..)..)))..)))))).. ( -19.80)
>DroAna_CAF1 20809 101 - 1
----------------A-UCCGAAUAAAAGGCAACGAGGCUGGG-GCCACAGUUUUCGCAUUUGAUUUAAUUGUGAAUGUAUUUAUUAAAUAAAUUAUUCAUGGCCAGGGCUAGUGCAC
----------------.-............(((....((((..(-(((((((((.(((....)))...))))))(((((.((((((...)))))))))))..))))..))))..))).. ( -25.30)
>consensus
________________G_GCGGAAUAAAAGGCAAAGUGG_GGGA_GCCACAAU_UUCGCAUUUGAUUUAAUUGUGAAUGUAUUUAUUAAAUAAAUUAUUCAUGGCCAGGGCGAGUGCAC
...................................((((.......)))).......(((((((.......((((((((.((((((...)))))))))))))).......))))))).. (-14.97 = -14.47 +  -0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:36 2006