Locus 4063

Sequence ID 3L_DroMel_CAF1
Location 11,841,896 – 11,841,990
Length 94
Max. P 0.760578
window6328

overview

Window 8

Location 11,841,896 – 11,841,990
Length 94
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 71.09
Mean single sequence MFE -23.96
Consensus MFE -14.71
Energy contribution -15.91
Covariance contribution 1.20
Combinations/Pair 1.12
Mean z-score -1.52
Structure conservation index 0.61
SVM decision value 0.50
SVM RNA-class probability 0.760578
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11841896 94 - 23771897
GCUUUUCAAACAAAAAUGCCAUAACUGGCUUGAGAACACGUGGCAUAUGUUACGGAUGGCGGGGA---UUCCCCACCAUUUUACCCCG---CACAAAAGU
(((((((((........((((....)))))))))))..((((((....))))))(((((.((((.---..)))).))))).......)---)........ ( -27.20)
>DroSec_CAF1 17947 89 - 1
GCUUUUCAAACAAAAAUGCCAUAACU-----GAGAACACGUGGCAUAUGUUACUGAUGACGGGGA---UUCCCCACCAUUUUACCCCG---CACAAAAGU
((((((..((((...(((((((....-----........))))))).)))).....((.(((((.---...............)))))---)).)))))) ( -19.09)
>DroSim_CAF1 17541 89 - 1
GCUUUUCAAACAAAAAUGCCAUAACU-----GAGAACACGUGGCAUAUGUUACUGAUGACGGGGA---UUCCCCACCAUUUUACCCCG---CACAAAAGU
((((((..((((...(((((((....-----........))))))).)))).....((.(((((.---...............)))))---)).)))))) ( -19.09)
>DroEre_CAF1 17513 73 - 1
------------GAAAUGCCAUAACUGCCUUGUGAACACGUGGCAUAUGUUGCUGAUGGCGGGGA---CGCCCCUCCAU------------UGCAAAAGU
------------.......((((..((((.(((....))).))))))))((((.(((((.((((.---..)))).))))------------))))).... ( -25.00)
>DroAna_CAF1 16759 99 - 1
-CGUUUCACAUACAAAUGGCAUAACUGCCGCACAAACACGUGGCAUAUGUUGCUGCUGGAUGGGGCAGUCUCCUACCAAGCGCCUCGGCGACCGAGAAGU
-................((((((..((((((........))))))))))))((.(((((.(((((.....))))))).)))))(((((...))))).... ( -29.40)
>consensus
GCUUUUCAAACAAAAAUGCCAUAACUG_C__GAGAACACGUGGCAUAUGUUACUGAUGGCGGGGA___UUCCCCACCAUUUUACCCCG___CACAAAAGU
...............(((((((.................)))))))........(((((.(((((....))))).))))).................... (-14.71 = -15.91 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:39 2006