Locus 9288

Sequence ID 3R_DroMel_CAF1
Location 24,758,389 – 24,758,488
Length 99
Max. P 0.800558
window14851

overview

Window 1

Location 24,758,389 – 24,758,488
Length 99
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 78.26
Mean single sequence MFE -18.98
Consensus MFE -8.91
Energy contribution -9.52
Covariance contribution 0.61
Combinations/Pair 1.07
Mean z-score -2.32
Structure conservation index 0.47
SVM decision value 0.62
SVM RNA-class probability 0.800558
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24758389 99 + 27905053
-----CCGCAAACAAACAUCUAUUAUGCACUUUCAAGCCAUUUGUAUUGGCGCUU-----ACUGCGGCAGCAGUCACAACAGCAACAAAGAUGACAAAAUGCAAUAAUU
-----..(((......(((((....(((........((((.......))))....-----(((((....))))).......)))....)))))......)))....... ( -23.00)
>DroPse_CAF1 9010 104 + 1
UCAUUCAAUAAAUAAACAUCUAUUAUAUGCUUUCAAGCCAUUCAGAUUGGCUUCCAAACAACUGCUGCGG-----GGAAAAGCAACAAAGAUGACAAAAUGCAAUAAUU
................(((((......((((((..(((((.......)))))(((...((.....))...-----)))))))))....)))))................ ( -17.40)
>DroSec_CAF1 9081 87 + 1
-----CCGCAAACAAACAUCUAUUAUGCACUUUCAAGCCAUUUGUAUUGGCGCUU-----ACUGC------------AACAGCAACAAAGAUGACAAAAUGCAAUAAUU
-----..(((......(((((....(((........((((.......))))((..-----...))------------....)))....)))))......)))....... ( -18.60)
>DroEre_CAF1 9149 99 + 1
-----CCGCAAACAAACAUCUAUUAUGCACUUUCAAGCCAUUUGUAUUGGCGCUU-----ACUGCGGCAGCAGCCACAACAGCAACAAAGAUGACAAAAUGCAAUAAUU
-----..(((......(((((....(((........((((.......))))((..-----...))(((....)))......)))....)))))......)))....... ( -22.80)
>DroYak_CAF1 9299 84 + 1
-----CCGCAAACAAACAUCUAUUAUGCACUUUCAAGCCAUUUGUAUUGGCGCUU-----ACUGCGGC---------------AACAAAGAUGACAAAAUGCAAUAAUU
-----..(((......(((((....(((........((((.......))))((..-----...)).))---------------)....)))))......)))....... ( -18.40)
>DroPer_CAF1 8848 104 + 1
UCAUUCAAUAAAUAAACAUCUAUUAUAUGCUUUCAAGCCAUUCAUAUUGGCUUCCAAACAACUGCUGCGG-----GGAAAAACAACAAAGAUGACAAAAUGCAAUAAUU
................(((((...............((((.......))))((((...((.....))...-----)))).........)))))................ ( -13.70)
>consensus
_____CCGCAAACAAACAUCUAUUAUGCACUUUCAAGCCAUUUGUAUUGGCGCUU_____ACUGCGGC_G_______AACAGCAACAAAGAUGACAAAAUGCAAUAAUU
.......(((......(((((...............((((.......))))...........(((................)))....)))))......)))....... ( -8.91 =  -9.52 +   0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:30:47 2006