Locus 1661

Sequence ID X_DroMel_CAF1
Location 4,682,595 – 4,682,700
Length 105
Max. P 0.944749
window2733

overview

Window 3

Location 4,682,595 – 4,682,700
Length 105
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 90.33
Mean single sequence MFE -39.17
Consensus MFE -30.39
Energy contribution -30.20
Covariance contribution -0.19
Combinations/Pair 1.04
Mean z-score -2.85
Structure conservation index 0.78
SVM decision value 1.35
SVM RNA-class probability 0.944749
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4682595 105 - 22224390
CUCAACGACCCGGAAAAAGG---AGGCGGGGCCACGCCCCUGCCACAAGGCAAGUGCAAACAUAAAUA------------UACAGCUGCAGAAAUGUGCUGGCUGUCUUCAGUUUUUCCU
...........(((((((((---(((((((((...)))))((((....))))................------------..((((.(((....)))))))...))))))..))))))). ( -36.40)
>DroSec_CAF1 36249 104 - 1
CUCAACGACCCGGAA-AAGG---AGGCGGGGCCACGCCCCUGCCACAAGGCAAGUGCAAACAUAAAUA------------UACAGCUGCAGAAAUGUGCUGGCUGUCUCCAGUUUUUCCU
...........((((-((((---(((((((((...)))))((((....))))................------------..((((.(((....)))))))...))))))...)))))). ( -38.00)
>DroEre_CAF1 36546 103 - 1
CUCAACGACCCGGAA-AAGG---GGGCGGGGCCACGCCCCUGCCACAAGACAAGUGCAAACAUAAAUA------------UACAGCUGCAGAAAUGUGCUGGCUGUC-UCAGUUUUUCCU
...........((((-((((---(((((......)))))))......(((((.((....)).......------------..((((.(((....)))))))..))))-)....)))))). ( -34.60)
>DroYak_CAF1 33374 119 - 1
CUCAACGAUCCGGAA-AAGGAGGAGGCGGGGCCACGCCCCUGCCACAAGGCAAGUGCAAACAUAAAUACGAGUAUACUCGUACAGCUGCAGAAAUGUGCUGGCUGUCCUCAGUUUUUCCU
...........((((-((.(((((((((((((...))))).)))....(((...............((((((....))))))((((.(((....)))))))))).)))))...)))))). ( -47.70)
>consensus
CUCAACGACCCGGAA_AAGG___AGGCGGGGCCACGCCCCUGCCACAAGGCAAGUGCAAACAUAAAUA____________UACAGCUGCAGAAAUGUGCUGGCUGUCUUCAGUUUUUCCU
...........((((.........((((((((...))))).)))....((((.((....)).....................((((.(((....)))))))..))))........)))). (-30.39 = -30.20 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:05 2006