Locus 1798

Sequence ID 3R_DroMel_CAF1
Location 5,138,220 – 5,138,314
Length 94
Max. P 0.852736
window2963

overview

Window 3

Location 5,138,220 – 5,138,314
Length 94
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 74.93
Mean single sequence MFE -19.06
Consensus MFE -9.92
Energy contribution -10.09
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -1.91
Structure conservation index 0.52
SVM decision value 0.80
SVM RNA-class probability 0.852736
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5138220 94 + 27905053
GUGGAAAACUGGAAAAAAAAC-----ACCAAACAGCAAACAAAAAG-----AAGAGAUGAGUGCGACAUUCGAGCGUUAAAAUUAACGAGUGUCACAAUUUACG
(((((....(((.........-----.)))....(((..((.....-----......))..)))((((((((..............))))))))....))))). ( -14.74)
>DroSec_CAF1 12724 85 + 1
GUGGAAAACUGGGCAAAAACC--------------CAAACAAAAAG-----CAGAGAUGAGUGCGACAUUCGAGCGUUAAAAUUAACGAGUGUCACAAUUUACG
(((((....((((......))--------------))........(-----((........)))((((((((..............))))))))....))))). ( -18.84)
>DroSim_CAF1 9398 74 + 1
GUGGAA-----------AACC--------------CAAACAAAAAG-----CAGAGAUGAGUGCGACAUUCGAGCGUUAAAAUUAACGAGUGUCACAAUUUACG
(((((.-----------....--------------..........(-----((........)))((((((((..............))))))))....))))). ( -14.44)
>DroEre_CAF1 10584 104 + 1
GUGGCAAACUCAUCAAAAACACAAGCAGCAAACAGCAAACAAAAAGGCGAGAUGAGAUGAGUGCGACAUUCGAGCGUUAAAAUUAACGAGUGUCACAAUUUACG
((((((..((((((.............((.....))...(.....)....)))))).((((((...))))))..(((((....)))))..))))))........ ( -21.10)
>DroYak_CAF1 10011 97 + 1
GUGGCAAACUCAUCAAAAAC-------GCAAACAGCAAACAAAAAAACGAGAUGAGAUGAGUGCGACAUUCGAGCGUUAAAAUUAACGAGUGUCACAAUUUACG
((((((..((((((......-------((.....))...(........).)))))).((((((...))))))..(((((....)))))..))))))........ ( -21.00)
>DroAna_CAF1 32217 81 + 1
GCGCCAAACUCGGCGCAAACA--------------CAUUUA--AGGGC-------CAGGAGAGUGACAUUCGAGCAUUAAAAUUAACGAGUGUCACAAUUUACG
(((((......))))).....--------------......--.....-------.......((((((((((..............))))))))))........ ( -24.24)
>consensus
GUGGAAAACUCGGCAAAAACC______________CAAACAAAAAG_____AAGAGAUGAGUGCGACAUUCGAGCGUUAAAAUUAACGAGUGUCACAAUUUACG
.............................................................((.((((((((..............)))))))).))....... ( -9.92 = -10.09 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:49 2006