Locus 3609

Sequence ID 3L_DroMel_CAF1
Location 10,629,201 – 10,629,318
Length 117
Max. P 0.598216
window5624

overview

Window 4

Location 10,629,201 – 10,629,318
Length 117
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 88.26
Mean single sequence MFE -27.00
Consensus MFE -18.46
Energy contribution -18.14
Covariance contribution -0.32
Combinations/Pair 1.19
Mean z-score -2.04
Structure conservation index 0.68
SVM decision value 0.13
SVM RNA-class probability 0.598216
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10629201 117 + 23771897
AAAUUUGUUGAAGCUAAUAGAUUGAUUAAACUGCUGACCUUAAAAAGGCGGUUUAUGUAUUUGUUUACACUUCGAUUUGUUUAUGUCGGCGGUUUUUUCUAUUUUCGUCGAAAUUAA
((((..(((((((..(((((((....(((((((((...........)))))))))...)))))))....)))))))..))))...(((((((............)))))))...... ( -28.50)
>DroSec_CAF1 511431 117 + 1
AAAUUUGUUGAAACUAAUAGAUUGAUUAAACUGCUGACCUUAAAAAGGCAGUUUACGUGUUUGUUUGCACUUCGAUUUGUUUAUGUCGGCGGUUUUUUCUAUUUUUGUUGAAAUUGA
......(((((....((((((((((.(((((((((...........))))))))).((((......)))).))))))))))....)))))((((((..(.......)..)))))).. ( -28.10)
>DroSim_CAF1 513299 117 + 1
AAAUUUGUUCAAAUUAAUAGAUUGAUUAAACUGCUGACCUUAAAAAGGCGGUUUACGUGUUUGUUUACACUUCGAUUUGUUUAUGUCGGCGGUUUUUUCUAUUUUCGUCGAAAUUGA
........((((...((((((((((.(((((((((...........))))))))).((((......)))).))))))))))....(((((((............)))))))..)))) ( -27.70)
>DroEre_CAF1 519669 114 + 1
AAAUGGAUUGAAAAUAAUAGAUUGAUUAAAUUGCUGACCUUAAA--AGCGGUUUACGUGUUUGUUUACACUUUGAUUUGUUUAUGCUGUCGGUU-UUUCUAUUUUAGUCGAAACUGA
(((..(((..((..............(((((((((.........--))))))))).((((......))))))..)))..)))......((((((-((.(((...)))..)))))))) ( -22.60)
>DroYak_CAF1 521962 114 + 1
GAAUUUGUUGAGUAUAAUAGAUUGAUUAAACUGCUGACCUUAAA--GGCGGUUUACGUGUUUGUUUACACUUUGAUUUGUUUAUGCAUUCGGUU-UUUCUAUUUUGGCCGAAACUGA
...........(((((((((((..(.(((((((((.........--))))))))).((((......)))).)..))))).)))))).(((((((-..........)))))))..... ( -28.10)
>consensus
AAAUUUGUUGAAAAUAAUAGAUUGAUUAAACUGCUGACCUUAAAAAGGCGGUUUACGUGUUUGUUUACACUUCGAUUUGUUUAUGUCGGCGGUUUUUUCUAUUUUCGUCGAAAUUGA
...............((((((((((.(((((((((...........))))))))).((((......)))).))))))))))........(((((((..(.......)..))))))). (-18.46 = -18.14 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:08 2006