Locus 9527

Sequence ID 3R_DroMel_CAF1
Location 25,178,603 – 25,178,710
Length 107
Max. P 0.670166
window15243

overview

Window 3

Location 25,178,603 – 25,178,710
Length 107
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 81.90
Mean single sequence MFE -31.05
Consensus MFE -20.50
Energy contribution -20.88
Covariance contribution 0.38
Combinations/Pair 1.25
Mean z-score -1.78
Structure conservation index 0.66
SVM decision value 0.29
SVM RNA-class probability 0.670166
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25178603 107 + 27905053
CCUAAUGAGAGCUA---------U--ACAUAUAUACGCAUAUAUGUAGAUAUAUGUUAUGUAUCGGACAAUUUGCGGACGAGCUGCUAGCUCGACUG-GGGCGAAUUAAUUGCCACAAG
((......((((((---------(--((((((((....)))))))))(((((((...))))))).........((((.....))))))))))....)-)(((((.....)))))..... ( -29.80)
>DroSec_CAF1 37087 116 + 1
CCUAAUGAGAGCUACACCGUUUGU--ACAUACAUACGCAUAUAUGUGGAUAUAUGUUAUGUAUCUGACAAUUUGCGGACGAGCUGCUAGCUCGACUG-GGGCGAAUUAAUUGUCACAAG
..((((....((..((((((((((--..(((((((.((((((((....)))))))))))))))...))))...)))).(((((.....)))))..))-..))..))))........... ( -32.50)
>DroSim_CAF1 37301 118 + 1
CCUAAUGAGAGCUACACCGUAGAUACACAUACAUAAGCAUAUAUGUGGAUAUAUGUUAUGUAUCUGACAAUUUGCGGACGAGCUGCUAGCUCGACUG-GGGCGAAUUAAUUGCCACAAG
((..............((((((((.((.((((((((.(((((((....))))))))))))))).))...)))))))).(((((.....)))))...)-)(((((.....)))))..... ( -37.30)
>DroYak_CAF1 39151 104 + 1
CCUAAUGAGAGCUA---------U--ACGCAUAUAUGUAUGUACCUAGAUAU-UCAGAUAUAUCCGACAAUUGGUGGACGAGC---UAACUCGCCCGGGGGCGAAUUAAUUGCCACAAG
.....((((..(((---------.--..(((((....)))))...)))...)-))).................((((.(((..---(((.(((((....))))).))).)))))))... ( -24.60)
>consensus
CCUAAUGAGAGCUA_________U__ACAUACAUACGCAUAUAUGUAGAUAUAUGUUAUGUAUCUGACAAUUUGCGGACGAGCUGCUAGCUCGACUG_GGGCGAAUUAAUUGCCACAAG
............................(((((((.((((((((....)))))))))))))))...........(((.(((((.....))))).)))..(((((.....)))))..... (-20.50 = -20.88 +   0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:36:30 2006