Locus 8235

Sequence ID 3L_DroMel_CAF1
Location 21,637,613 – 21,637,722
Length 109
Max. P 0.837481
window13467

overview

Window 7

Location 21,637,613 – 21,637,722
Length 109
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 82.51
Mean single sequence MFE -32.85
Consensus MFE -23.70
Energy contribution -24.23
Covariance contribution 0.53
Combinations/Pair 1.28
Mean z-score -2.44
Structure conservation index 0.72
SVM decision value 0.74
SVM RNA-class probability 0.837481
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21637613 109 + 23771897
GUGGCUGCAAGCCACGC-AAAUUCGCCGCGAAAAAUUGC---CC---ACAAUUGCCAGUGGCCGAGAAAUGAAAGCGCUCAAAUUUGCAUACUCGUACUGUCAAAUGAAGCGUAGC
(((((.....)))))((-...((((((((....(((((.---..---.)))))....)))).))))........(((((...(((((((((....)).)).)))))..))))).)) ( -31.80)
>DroSec_CAF1 14307 109 + 1
GUGGCUGCAAGCCACGC-AAAUUCGCCGCGAAAAAUUGC---CC---ACAAUUGCCAGUGGCCGAGAAAUGAAAGCGCUCAAAUUUGCAUACUCGUACUGGCAAAUGAAGCGCAGC
(((((.....)))))((-...((((((((....(((((.---..---.)))))....)))).))))........(((((...((((((.((....))...))))))..))))).)) ( -36.20)
>DroSim_CAF1 14468 109 + 1
GUGGCUGCAAGCCACGC-AAAUUCGUCGCGAAAAAUUGC---CC---ACAAUUGCCAGUGGCCGAGAAAUGAAAGCGCUCAAAUUUGCAUACUCGCACUGGCAAAUGAAGCGCAGC
(((((.....)))))((-...(((((.((((....))))---..---....(((((((((..((((...(....).((........))...))))))))))))))))))..))... ( -34.80)
>DroEre_CAF1 12921 103 + 1
GUGGCUGCAAGCUACAC-AAAUUCGCUGCGAAAAAUUGC---CC---AUAAUUGCUAGUGGCCGAGAAAUGAAAGCGCUCAAAUUUGCAUACA------AGCAAAUGAAGCGCAGC
(((((.....)))))..-...(((((..(....(((((.---..---.)))))....)..).))))........(((((...((((((.....------.))))))..)))))... ( -29.20)
>DroYak_CAF1 23457 100 + 1
GUGGCUGCAAGCUACGC-AAAUCCGCCGCGA---AUUGG---CC---ACAACUGCCAGUGGCCGAGAAAUGAAAGCGCUAAAAUUUGCAUACA------AGCAAAUGAAGCGCAGC
((((((((.......))-).....)))))..---.((((---((---((........)))))))).........(((((...((((((.....------.))))))..)))))... ( -37.50)
>DroAna_CAF1 12570 110 + 1
GUGGUUGGGAAUUACGGAAAAUUCACCGCGAAAAAUCGUUAGCCGGUGCAAUGGGGACUGGCUAAGAAAUGAAAGCGCACAAAUUUGCAUACA------AACAAAUGAAGCAGAUC
(((...(((((((......))))).))((......((.(((((((((.(.....).))))))))))).......)).)))..((((((...((------......))..)))))). ( -27.62)
>consensus
GUGGCUGCAAGCCACGC_AAAUUCGCCGCGAAAAAUUGC___CC___ACAAUUGCCAGUGGCCGAGAAAUGAAAGCGCUCAAAUUUGCAUACA______AGCAAAUGAAGCGCAGC
(((((.....)))))......((((((((....(((((..........)))))....)))).))))........(((((...((((((............))))))..)))))... (-23.70 = -24.23 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:10:06 2006