Locus 427

Sequence ID 3L_DroMel_CAF1
Location 1,239,559 – 1,239,658
Length 99
Max. P 0.627409
window623

overview

Window 3

Location 1,239,559 – 1,239,658
Length 99
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 61.23
Mean single sequence MFE -23.80
Consensus MFE -8.53
Energy contribution -10.30
Covariance contribution 1.77
Combinations/Pair 1.35
Mean z-score -1.66
Structure conservation index 0.36
SVM decision value 0.19
SVM RNA-class probability 0.627409
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1239559 99 - 23771897
CGCGGCCUUGACUGGGCAGU----UAAGUGCCCUUAAUGAAGAUGGGCAUAUACACUUGC-AAGCAGAUUACUGCGGGUUAGGGUAUCUACAUCAGAU-CAAUCA
....(((((((((..(((((----((.((((((...........)))))).)).)).)))-..((((....)))).)))))))))((((.....))))-...... ( -30.10)
>DroSec_CAF1 1676 100 - 1
CGCGGCCUUGAAUGGGCAGU----UAAAUGCCCUUAAUGAAGAUGGGCAUACACACUUGC-AAGCAGAUUGCUGCGGGUUAGGGUAUUAACAUGAGAUACAAUCA
....((((.....)))).((----(((.(((((...........)))))(((..((((((-(.((.....)))))))))....)))))))).............. ( -27.70)
>DroSim_CAF1 1612 88 - 1
CGCGGCCUUGACUGGGCAGU----UAAAUGCCCUUAAUGAAGAUGGGCAUAUACACUUGU-AAGCAGAUUACUGCGGGUUAGGGUAU------------CAAUCA
....(((((((((..(((((----((.((((((...........)))))).)).)).)))-..((((....)))).)))))))))..------------...... ( -27.70)
>DroEre_CAF1 3576 76 - 1
CGCGUCCUUGACUGGGCAU-----UAAGUACCCCUAAUGAAGAUUUUCCGCUUUAUUAAGUUUGCAAAUUAUUUCCUAAUA------------------------
...((((......))))..-----...(((..(.((((((((........)))))))).)..)))................------------------------ ( -13.90)
>DroYak_CAF1 1737 95 - 1
CGCGUCCUUGACUGGGCAGUUAAGUAAAUACCCUUAAUGAAGAUGGGCGUAUGGAUUUGCUGAGCAGAUUACUGCGGGAUAAGGUAUCUACA----------UCA
...((((......)))).((((((........))))))...((((..((((..(((((((...)))))))..))))(((((...))))).))----------)). ( -23.50)
>DroAna_CAF1 3507 75 - 1
AACGUCCUUGAA--AACGGU----UUCAUGCCCUCAA----GACCUUAAGGUAUACCUGA-AAAGUGAAAACUU---UUCAAGAUAU------------CA----
...(((.((((.--...(((----.....))).))))----))).....(((((.(.(((-(((((....))))---)))).)))))------------).---- ( -19.90)
>consensus
CGCGGCCUUGACUGGGCAGU____UAAAUGCCCUUAAUGAAGAUGGGCAUAUACACUUGC_AAGCAGAUUACUGCGGGUUAGGGUAU____________CA_UCA
.....(((((((((((((..........)))))..............................((((....)))).))))))))..................... ( -8.53 = -10.30 +   1.77)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:33 2006