Locus 5010

Sequence ID 2R_DroMel_CAF1
Location 16,312,040 – 16,312,135
Length 95
Max. P 0.990926
window8018

overview

Window 8

Location 16,312,040 – 16,312,135
Length 95
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 77.70
Mean single sequence MFE -29.20
Consensus MFE -13.78
Energy contribution -13.58
Covariance contribution -0.20
Combinations/Pair 1.13
Mean z-score -2.67
Structure conservation index 0.47
SVM decision value 2.24
SVM RNA-class probability 0.990926
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16312040 95 + 20766785
CACACCCACUCCACCCACACACAAGGCCGCC----GCAAAAGGCGCC--CACUU-CC-----CGACA------UUUCGGGAAAAACGGGAAAAGUUUCGGGUGGCACUAAUGC
..((((((((...(((........((.((((----......)))).)--)..((-((-----(((..------..)))))))....)))...)))...))))).......... ( -35.00)
>DroSec_CAF1 15390 97 + 1
C----CCACUCCACCCACACACAAGGCCGCC----GCAAAAGGCGCCCCCACUC-CCCACUCCGCCA------UUUCG-GAAAAACGGGAAAAGUUUCGGGUGGCACUAAUGC
.----.....((((((........(((.(((----......)))))).....((-((...((((...------...))-)).....))))........))))))......... ( -30.50)
>DroSim_CAF1 15724 96 + 1
C----CCACUCCACCCACACACAAGGCCGCC----GCAAAAGGCGCC-CCACUC-CCCACUCCGCCA------UUUCG-GAAAAACGGGAAAAGUUUCGGGUGGCACUAAUGC
.----.....((((((........(((.(((----......))))))-....((-((...((((...------...))-)).....))))........))))))......... ( -30.50)
>DroEre_CAF1 14492 91 + 1
------ACCACCACCCA--CACAAGGCCACCAAAGGCAAAGAGCGCC--CAC-----------GCCACCCACUGUUCG-GAAAAUCGGGAAAAGUUUCGGGUGGCACUAAUGC
------...........--......(((......)))..........--...-----------((((((((((.((((-......))))...)))...)))))))........ ( -23.00)
>DroYak_CAF1 15289 100 + 1
C----CCCCACCACCCA--CACAAGGCCACC----GCAAAGAGCGCC--CACUGCGCCAUUUCGCCACCCACUAUUUG-GAAAAUCGGGAAAAGUUUUGUGUGGCACUAAUGC
.----.........(((--((((((((..((----(((((..((((.--....))))..))).))...(((.....))-)......)).....)))))))))))......... ( -27.00)
>consensus
C____CCACUCCACCCACACACAAGGCCGCC____GCAAAAGGCGCC__CACUC_CCCA_U_CGCCA______UUUCG_GAAAAACGGGAAAAGUUUCGGGUGGCACUAAUGC
.......................((((((((....((.....)).........................................(((((....))))))))))).))..... (-13.78 = -13.58 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:22 2006