Locus 1205

Sequence ID 3R_DroMel_CAF1
Location 3,629,930 – 3,630,021
Length 91
Max. P 0.931424
window1971

overview

Window 1

Location 3,629,930 – 3,630,021
Length 91
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 77.83
Mean single sequence MFE -23.78
Consensus MFE -18.57
Energy contribution -18.65
Covariance contribution 0.08
Combinations/Pair 1.09
Mean z-score -1.67
Structure conservation index 0.78
SVM decision value 1.21
SVM RNA-class probability 0.931424
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3629930 91 + 27905053
GAAAUUUGCUCGCCGUUGUAAUAAAUGGCAGCGGCACGCGAUAAGUUAAAUUCGCAAUUUAUUGGCAUUUUCAGUGGUUU-----GGAGUGGCUUU-----------------
.....(..(((((((((((........))))))))..((((..........))))...(((((((.....)))))))...-----.)))..)....----------------- ( -25.90)
>DroPse_CAF1 3910 113 + 1
GAAAUUUGUUCACCGGUGUAGUACACGGCAGCGGCACGCGAUAAAUUAAAAUCACAAUCUAUUGACAUUUUCACUGGUCAAUCGUUUGGCAAAUUGCAUAUCAUUAACAAAAG
....((((((..(((.(((.(....).))).))).....((((...........(((.(.((((((..........)))))).).)))((.....)).))))...)))))).. ( -20.60)
>DroSec_CAF1 4045 82 + 1
GAAAUUUGCUCGCCGUUGUAAUAAAUGGCAGCGGCACGCGAUAAGUUAAAUUCACAAUUUAUUGGCAUUUUCAGUGGUUU--------------UU-----------------
((((..(((..((((((((........))))))))...(((((((((........)))))))))))).))))........--------------..----------------- ( -24.20)
>DroSim_CAF1 5369 82 + 1
GAAAUUUGCUCGCCGUUGUAAUAAAUGGCAGCGGCACGCGAUAAGUUAAAUUCACAAUUUAUUGGCAUUUUCAGUGGUUU--------------UU-----------------
((((..(((..((((((((........))))))))...(((((((((........)))))))))))).))))........--------------..----------------- ( -24.20)
>DroEre_CAF1 5089 91 + 1
GAAACUCGCUCGCCGGUGUAAUAAACAGCAGCGGCACGCGAUAAGUUGAAUUCACAAUUUAUUGGCAUUUUCAGUGGCAU-----GCAGCAGAUUU-----------------
.......(((.((((.(((........))).))))..(((((((((((......)))))))))(.(((.....))).)..-----)))))......----------------- ( -25.00)
>DroYak_CAF1 4780 91 + 1
GAAAUUUGCUCGCCGGUGUAAUAAAUGGCAGCGGCACGCGAUAAGUUAAAUUCACAAUUUAUUGGCAUUUUCAGUGGUAU-----GGAGUAGCUCU-----------------
.....((((((((((.(((........))).))))..((((((((((........)))))))).))..............-----.))))))....----------------- ( -22.80)
>consensus
GAAAUUUGCUCGCCGGUGUAAUAAAUGGCAGCGGCACGCGAUAAGUUAAAUUCACAAUUUAUUGGCAUUUUCAGUGGUUU_____G_AG_AG_UUU_________________
((((..(((..((((.(((........))).))))...(((((((((........)))))))))))).))))......................................... (-18.57 = -18.65 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:35 2006